%%% -*-BibTeX-*- %%% ==================================================================== %%% BibTeX-file{ %%% author = "Nelson H. F. Beebe", %%% version = "2.02", %%% date = "20 June 2016", %%% time = "10:54:12 MDT", %%% filename = "jstatsoft.bib", %%% address = "University of Utah %%% Department of Mathematics, 110 LCB %%% 155 S 1400 E RM 233 %%% Salt Lake City, UT 84112-0090 %%% USA", %%% telephone = "+1 801 581 5254", %%% FAX = "+1 801 581 4148", %%% URL = "http://www.math.utah.edu/~beebe", %%% checksum = "54456 27639 111025 1161866", %%% email = "beebe at math.utah.edu, beebe at acm.org, %%% beebe at computer.org (Internet)", %%% codetable = "ISO/ASCII", %%% keywords = "BibTeX; bibliography; Journal of %%% Statistical Software", %%% license = "public domain", %%% supported = "yes", %%% docstring = "This is a COMPLETE bibliography of the %%% Journal of Statistical Software (CODEN %%% JSSOBK, ISSN 1548-7660). %%% %%% From 1996 to 2005, the journal was published %%% electronically at the Department of %%% Statistics, University of California, Los %%% Angeles and had a World-Wide Web site at %%% %%% http://www.jstatsoft.org/ %%% http://www.stat.ucla.edu/journals/jss/ %%% %%% In late 2005, the journal moved under the %%% American Statistical Association, with a Web %%% site link from %%% %%% http://www.amstat.org/publications/index.cfm?fuseaction=main %%% %%% to the original Web site. %%% %%% In 2015, editorial and journal production %%% moved again, to the Foundation for Open %%% Access Statistics, with the new Web site %%% (which links back to the original) %%% %%% http://www.foastat.org/jss.html %%% %%% At version 2.02, the year coverage looked %%% like this: %%% %%% 1996 ( 4) 2003 ( 22) 2010 ( 85) %%% 1997 ( 9) 2004 ( 23) 2011 ( 111) %%% 1998 ( 4) 2005 ( 48) 2012 ( 92) %%% 1999 ( 6) 2006 ( 39) 2013 ( 59) %%% 2000 ( 8) 2007 ( 81) 2014 ( 93) %%% 2001 ( 8) 2008 ( 62) 2015 ( 111) %%% 2002 ( 13) 2009 ( 73) 2016 ( 38) %%% %%% Article: 988 %%% Misc: 1 %%% %%% Total entries: 989 %%% %%% In late 2002, the journal Web site carries %%% notice of a plan to be absorbed into the %%% Journal of Computational and Graphical %%% Statistics (no CODEN, ISSN 1061-8600), %%% published by the American Statistical %%% Association. That journal is covered in a %%% companion bibliography, jcomputgraphstat.bib. %%% %%% The journal is unusual in that each article %%% constitutes one issue, and no page numbers %%% are available if only an HTML form of the %%% article is available. %%% %%% Entries in this bibliography have been %%% derived almost entirely from data at the %%% journal Web site. %%% %%% After the release of version 1.34 of this %%% bibliography, DOI (Digital Object Identifier) %%% values were added to every entry, and the %%% version number was advanced to 2.00. In %%% addition, the new DOI values were then used %%% at the doi.org site to retrieve BibTeX %%% entries that were merged into this file. %%% That operation revealed hundreds of %%% discrepancies in author and title data that %%% had to be resolved by downloading and viewing %%% their article PDF files. %%% %%% At version 2.00, more than 665 entries %%% contain xxtitle values, most without further %%% markup; they correspond to titles from %%% lookups at the doi.org site. They should %%% eventually be matched against the normal %%% title values, and any discrepancies should be %%% resolved by consulting the article PDF files. %%% The xxtitle fields can then be removed. %%% %%% Spelling has been verified with the UNIX %%% spell and GNU ispell programs using the %%% exception dictionary stored in the companion %%% file with extension .sok. %%% %%% BibTeX citation tags are uniformly chosen as %%% name:year:abbrev, where name is the family %%% name of the first author or editor, year is a %%% 4-digit number, and abbrev is a 3-letter %%% condensation of important title %%% words. Citation tags were automatically %%% generated by software developed for the %%% BibNet Project. %%% %%% In this bibliography, entries are sorted %%% in publication order. %%% %%% The checksum field above contains a CRC-16 %%% checksum as the first value, followed by the %%% equivalent of the standard UNIX wc (word %%% count) utility output of lines, words, and %%% characters. This is produced by Robert %%% Solovay's checksum utility.", %%% } %%% ====================================================================

@Preamble{ "\ifx \undefined \booktitle \def \booktitle #1{{{\em #1}}} \fi" # "\ifx \undefined \circled \def \circled #1{(#1)} \fi" # "\ifx \undefined \fun \def \fun #1{{{\tt #1}}} \fi" # "\ifx \undefined \pkg \def \pkg #1{{{\tt #1}}} \fi" # "\ifx \undefined \reg \def \reg {\circled{R}} \fi" # "\ifx \undefined \textfrak \def \textfrak #1{$\cal #1$} \fi" # "\ifx \undefined \textrm \def \textrm #1{{\rm #1}} \fi" # "\ifx \undefined \url \def \url #1{{\tt #1}} \fi" }

%%% ==================================================================== %%% Acknowledgement abbreviations:

@String{ack-nhfb= "Nelson H. F. Beebe, University of Utah, Department of Mathematics, 110 LCB, 155 S 1400 E RM 233, Salt Lake City, UT 84112-0090, USA, Tel: +1 801 581 5254, FAX: +1 801 581 4148, e-mail: \path|beebe@math.utah.edu|, \path|beebe@acm.org|, \path|beebe@computer.org| (Internet), URL: \path|http://www.math.utah.edu/~beebe/|"}

%%% ==================================================================== %%% Journal abbreviations:

@String{j-J-STAT-SOFT= "Journal of Statistical Software"}

%%% ==================================================================== %%% Bibliography entries:

@Article{Barry:1996:DAF, author = "Ronald Barry", title = "A Diagnostic to Assess the Fit of a Variogram Model to Spatial Data", journal = j-J-STAT-SOFT, volume = "1", number = "1", pages = "1--11", month = "????", year = "1996", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v001.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v01/i01; http://www.jstatsoft.org/v01/i01/barry.pdf; http://www.jstatsoft.org/v01/i01/code.txt; http://www.jstatsoft.org/v01/i01/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Bond:1996:HAX, author = "Jason Bond and George Michailides", title = "Homogeneity Analysis in {Xlisp--Stat}", journal = j-J-STAT-SOFT, volume = "1", number = "2", pages = "??--??", month = "????", year = "1996", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v001.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v01/i02; http://www.jstatsoft.org/v01/i02/code_old.phtml; http://www.jstatsoft.org/v01/i02/data.phtml; http://www.jstatsoft.org/v01/i02/PAPER/paper.html; http://www.jstatsoft.org/v01/i02/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Lumley:1996:XST, author = "Thomas Lumley", title = "{XLISP--Stat} Tools for Building Generalised Estimating Equation Models", journal = j-J-STAT-SOFT, volume = "1", number = "3", pages = "??--??", month = "????", year = "1996", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v001.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v01/i03; http://www.jstatsoft.org/v01/i03/code/; http://www.jstatsoft.org/v01/i03/data/; http://www.jstatsoft.org/v01/i03/paper/geejss/geejss.html; http://www.jstatsoft.org/v01/i03/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Struyf:1996:COO, author = "Anja Struyf and Mia Hubert and Peter Rousseeuw", title = "Clustering in an Object-Oriented Environment", journal = j-J-STAT-SOFT, volume = "1", number = "4", pages = "1--30", month = "????", year = "1996", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v001.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v01/i04; http://www.jstatsoft.org/v01/i04/code/; http://www.jstatsoft.org/v01/i04/data/; http://www.jstatsoft.org/v01/i04/paper/clus.pdf; http://www.jstatsoft.org/v01/i04/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{deLeeuw:1997:SSS, author = "Jan de Leeuw", title = "Server-side Statistics Scripting in {PHP}", journal = j-J-STAT-SOFT, volume = "2", number = "1", pages = "1--13", month = "????", year = "1997", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v002.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v02/i01; http://www.jstatsoft.org/v02/i01/code/; http://www.jstatsoft.org/v02/i01/Dstatistics/; http://www.jstatsoft.org/v02/i01/statistics.pdf; http://www.jstatsoft.org/v02/i01/statistics.ps; http://www.jstatsoft.org/v02/i01/statistics/statistics.html; http://www.jstatsoft.org/v02/i01/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Brown:1997:APL, author = "Barry W. Brown and James Lovato and Kathy Russell", title = "The {Asypow S(plus)} Library for Asymptotic Power Calculations", journal = j-J-STAT-SOFT, volume = "2", number = "2", pages = "1--21", month = "????", year = "1997", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v002.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v02/i02; http://www.jstatsoft.org/v02/i02/asypow-2.1.tar.Z; http://www.jstatsoft.org/v02/i02/dist; http://www.jstatsoft.org/v02/i02/docs/asypow.pdf; http://www.jstatsoft.org/v02/i02/docs/asypow.ps.gz; http://www.jstatsoft.org/v02/i02/docs/asypow/; http://www.jstatsoft.org/v02/i02/docs/cheat.pdf; http://www.jstatsoft.org/v02/i02/docs/cheat.ps.gz; http://www.jstatsoft.org/v02/i02/docs/cheat/; http://www.jstatsoft.org/v02/i02/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{West:1997:SAW, author = "R. Webster West and R. Todd Ogden", title = "Statistical Analysis with {Webstat}, {Java} applet for the {World Wide Web}", journal = j-J-STAT-SOFT, volume = "2", number = "3", pages = "1--7", month = "????", year = "1997", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v002.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v02/i03; http://www.jstatsoft.org/v02/i03/HTML/; http://www.jstatsoft.org/v02/i03/updates; http://www.jstatsoft.org/v02/i03/webstat.pdf; http://www.jstatsoft.org/v02/i03/webstat.ps", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Peterson:1997:CCP, author = "Leif E. Peterson", title = "{COVAR}: Computer Program for Multifactor Relative Risks and Tests of Hypotheses Using a Variance-Covariance Matrix from Linear and Log-Linear Regression", journal = j-J-STAT-SOFT, volume = "2", number = "4", pages = "1--21", month = "????", year = "1997", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v002.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v02/i04; http://www.jstatsoft.org/v02/i04/covar.pdf; http://www.jstatsoft.org/v02/i04/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Peterson:1997:PPI, author = "Leif E. Peterson", title = "{PIRLS}: {Poisson Iteratively Reweighted Least Squares} Computer Program for Additive, Multiplicative, Power, and Non-linear Models", journal = j-J-STAT-SOFT, volume = "2", number = "5", pages = "1--28", month = "????", year = "1997", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v002.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v02/i05; http://www.jstatsoft.org/v02/i05/code/; http://www.jstatsoft.org/v02/i05/pirls.pdf; http://www.jstatsoft.org/v02/i05/pirls.ps.gz; http://www.jstatsoft.org/v02/i05/pirls/; http://www.jstatsoft.org/v02/i05/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Cook:1997:CYE, author = "Dianne Cook", title = "Calibrate Your Eyes to Recognize High-Dimensional Shapes from Their Low-Dimensional Projections", journal = j-J-STAT-SOFT, volume = "2", number = "6", pages = "1--7", month = "????", year = "1997", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v002.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v02/i06; http://www.jstatsoft.org/v02/i06/paper.pdf; http://www.jstatsoft.org/v02/i06/paper.ps.gz; http://www.jstatsoft.org/v02/i06/paper/code.html; http://www.jstatsoft.org/v02/i06/paper/data; http://www.jstatsoft.org/v02/i06/paper/paper.html; http://www.jstatsoft.org/v02/i06/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{McLachlan:1997:AFM, author = "Geoff McLachlan and Angus Ng and Peter Adams and David McGiffin and Andrew Gailbraith", title = "An Algorithm for Fitting Mixtures of {Gompertz} Distributions to Censored Survival Data", journal = j-J-STAT-SOFT, volume = "2", number = "7", pages = "1--23", month = "????", year = "1997", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v002.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v02/i07; http://www.jstatsoft.org/v02/i07/0010.pdf; http://www.jstatsoft.org/v02/i07/0010.ps.gz; http://www.jstatsoft.org/v02/i07/code/; http://www.jstatsoft.org/v02/i07/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Bond:1997:ICA, author = "Jason Bond and George Michailides", title = "Interactive Correspondence Analysis in a Dynamic Object-Oriented Environment", journal = j-J-STAT-SOFT, volume = "2", number = "8", pages = "1--30", month = "????", year = "1997", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v002.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v02/i08; http://www.jstatsoft.org/v02/i08/jss.pdf; http://www.jstatsoft.org/v02/i08/jss.ps.gz; http://www.jstatsoft.org/v02/i08/texstuff/jss/; http://www.jstatsoft.org/v02/i08/updates; http://www.jstatsoft.org/v02/i08/xlisp-anacor.lsp; http://www.jstatsoft.org/v02/i08/xlisp-anacor.xli", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Bois:1997:MMC, author = "Fre{\'e}d{\'e}ric Y. Bois and Don R. Maszle", title = "{MCSim}: a {Monte Carlo} Simulation Program", journal = j-J-STAT-SOFT, volume = "2", number = "9", pages = "1--60", month = "????", year = "1997", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v002.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v02/i09; http://www.jstatsoft.org/v02/i09/mcsim/doc/mcsim.html; http://www.jstatsoft.org/v02/i09/mcsim/doc/mcsim.pdf; http://www.jstatsoft.org/v02/i09/mcsim/doc/mcsim.ps; http://www.jstatsoft.org/v02/i09/mcsim/sim; http://www.jstatsoft.org/v02/i09/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Boik:1998:DIB, author = "Robert J. Boik and James F. Robison-Cox", title = "Derivatives of the Incomplete Beta Function", journal = j-J-STAT-SOFT, volume = "3", number = "1", pages = "1--20", month = "????", year = "1998", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v003.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v03/i01; http://www.jstatsoft.org/v03/i01/beta.der.pdf; http://www.jstatsoft.org/v03/i01/beta.der.ps.gz; http://www.jstatsoft.org/v03/i01/code/; http://www.jstatsoft.org/v03/i01/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Lumley:1998:SAX, author = "Thomas Lumley", title = "Survival Analysis in {XLISP--Stat}. {A} semiliterate program", journal = j-J-STAT-SOFT, volume = "3", number = "2", pages = "1--90", month = "????", year = "1998", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v003.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v03/i02; http://www.jstatsoft.org/v03/i02/code/; http://www.jstatsoft.org/v03/i02/coxregdoc.pdf; http://www.jstatsoft.org/v03/i02/coxregdoc.ps.gz; http://www.jstatsoft.org/v03/i02/survival.tar.gz; http://www.jstatsoft.org/v03/i02/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", keywords = "noweb", } @Article{Marsaglia:1998:MPM, author = "George Marsaglia and Wai Wan Tsang", title = "The {Monty Python} Method for Generating Gamma Variables", journal = j-J-STAT-SOFT, volume = "3", number = "3", pages = "1--8", month = "????", year = "1998", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v003.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/bibnet/authors/m/marsaglia-george.bib; http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v03/i03; http://www.jstatsoft.org/v03/i03/GERMGAM.PDF; http://www.jstatsoft.org/v03/i03/GERMGAM.PS; http://www.jstatsoft.org/v03/i03/updates", abstract = "The Monty Python Method for generating random variables takes a decreasing density, cuts it into three pieces, then, using area-preserving transformations, folds it into a rectangle of area $1$. A random point $ (x, y)$ from that rectangle is used to provide a variate from the given density, most of the time as $x$ itself or a linear function of $x$. The decreasing density is usually the right half of a symmetric density.\par The Monty Python method has provided short and fast generators for normal, $t$ and von Mises densities, requiring, on the average, from $ 1.5$ to $ 1.8$ uniform variables. In this article, we apply the method to non-symmetric densities, particularly the important gamma densities. We lose some of the speed and simplicity of the symmetric densities, but still get a method for variates that is simple and fast enough to provide beta variates in the form $ \gamma_a = (\gamma_a + \gamma_b)$. We use an average of less than $ 1.7$ uniform variates to produce a gamma variate whenever $ \alpha \geq 1$. Implementation is simpler and from three to five times as fast as a recent method reputed to be the best for changing $ \alpha $ s.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Somerville:1998:FPE, author = "Paul N. Somerville", title = "A {Fortran 90} Program for Evaluation of Multivariate Normal and Multivariate $t$ Integrals Over Convex Regions", journal = j-J-STAT-SOFT, volume = "3", number = "4", pages = "1--10", month = "????", year = "1998", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v003.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v03/i04; http://www.jstatsoft.org/v03/i04/mvi3.for; http://www.jstatsoft.org/v03/i04/somerville.pdf; http://www.jstatsoft.org/v03/i04/somerville.ps; http://www.jstatsoft.org/v03/i04/updates; http://www.jstatsoft.org/v03/i04/winmvi3.exe", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Banfield:1999:RWB, author = "Jeff Banfield", title = "{Rweb}: {Web}-based Statistical Analysis", journal = j-J-STAT-SOFT, volume = "4", number = "1", pages = "1--15", month = "????", year = "1999", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v004.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v04/i01; http://www.jstatsoft.org/v04/i01/Rweb.pdf; http://www.jstatsoft.org/v04/i01/Rweb.ps; http://www.jstatsoft.org/v04/i01/Rweb.tar.gz; http://www.jstatsoft.org/v04/i01/Rweb/Rweb.html; http://www.jstatsoft.org/v04/i01/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{McLachlan:1999:EAF, author = "Geoff J. McLachlan and David Peel", title = "The {EMMIX} Algorithm for the Fitting of Normal and $t$-Components", journal = j-J-STAT-SOFT, volume = "4", number = "2", pages = "1--14", month = "????", year = "1999", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v004.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v04/i02; http://www.jstatsoft.org/v04/i02/emmix.tar.gz; http://www.jstatsoft.org/v04/i02/guide.pdf; http://www.jstatsoft.org/v04/i02/paper.pdf; http://www.jstatsoft.org/v04/i02/updates; http://www.maths.uq.edu.au/~gjm/emmix/emmix.html", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Doss:1999:DDC, author = "Hani J. Doss and Balasubramanian Narasimhan", title = "Dynamic Display of Changing Posterior in {Bayesian} Survival Analysis: The Software", journal = j-J-STAT-SOFT, volume = "4", number = "3", pages = "1--72", month = "????", year = "1999", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v004.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v04/i03; http://www.jstatsoft.org/v04/i03/bsa.pdf; http://www.jstatsoft.org/v04/i03/bsa.tgz; http://www.jstatsoft.org/v04/i03/ddg.pdf; http://www.jstatsoft.org/v04/i03/example/; http://www.jstatsoft.org/v04/i03/html/bsa.html; http://www.jstatsoft.org/v04/i03/lisp/; http://www.jstatsoft.org/v04/i03/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Dunn:1999:GUI, author = "Peter Dunn", title = "A Graphical User Interface to Generalized Linear Models in {MATLAB}", journal = j-J-STAT-SOFT, volume = "4", number = "4", pages = "1--25", month = "????", year = "1999", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v004.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v04/i04; http://www.jstatsoft.org/v04/i04/guiglm.pdf; http://www.jstatsoft.org/v04/i04/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Hedeker:1999:MCP, author = "Donald Hedeker", title = "{MIXNO}: a computer program for mixed-effects nominal logistic regression", journal = j-J-STAT-SOFT, volume = "4", number = "5", pages = "1--92", month = "????", year = "1999", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v004.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v04/i05; http://www.jstatsoft.org/v04/i05/mixno102.exe; http://www.jstatsoft.org/v04/i05/mixnocm.pdf; http://www.jstatsoft.org/v04/i05/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Jamshidian:1999:ARR, author = "Mortaza Jamshidian", title = "Adaptive Robust Regression by Using a Nonlinear Regression Program", journal = j-J-STAT-SOFT, volume = "4", number = "6", pages = "1--25", month = "????", year = "1999", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v004.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v04/i06; http://www.jstatsoft.org/v04/i06/code; http://www.jstatsoft.org/v04/i06/tdistIIr1.pdf; http://www.jstatsoft.org/v04/i06/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Ramirez:2000:GD, author = "Donald E. Ramirez", title = "The Generalized {$F$} Distribution", journal = j-J-STAT-SOFT, volume = "5", number = "1", pages = "1--14", month = "????", year = "2000", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v005.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v05/i01; http://www.jstatsoft.org/v05/i01/GENF.f; http://www.jstatsoft.org/v05/i01/GENF.pdf; http://www.jstatsoft.org/v05/i01/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Wooff:2000:BLP, author = "David Wooff and Michael Goldstein", title = "The {Bayes} Linear Programming Language [{B/D}]", journal = j-J-STAT-SOFT, volume = "5", number = "2", pages = "1--19", month = "????", year = "2000", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v005.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://maths.dur.ac.uk/stats/bd/; http://www.jstatsoft.org/v05/i02; http://www.jstatsoft.org/v05/i02/blm1.pdf; http://www.jstatsoft.org/v05/i02/blm2.pdf; http://www.jstatsoft.org/v05/i02/blm3.pdf; http://www.jstatsoft.org/v05/i02/man.pdf; http://www.jstatsoft.org/v05/i02/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Udina:2000:IIC, author = "Frederic Udina", title = "Implementing interactive computing in an object-oriented environment", journal = j-J-STAT-SOFT, volume = "5", number = "3", pages = "1--20", month = "????", year = "2000", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v005.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v05/i03; http://www.jstatsoft.org/v05/i03/lisp-code/; http://www.jstatsoft.org/v05/i03/object-computing.pdf; http://www.jstatsoft.org/v05/i03/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Firth:2000:QVX, author = "David Firth", title = "Quasi-variances in {Xlisp--Stat} and on the {Web}", journal = j-J-STAT-SOFT, volume = "5", number = "4", pages = "1--13", month = "????", year = "2000", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v005.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v05/i04; http://www.jstatsoft.org/v05/i04/code/; http://www.jstatsoft.org/v05/i04/QV_man.pdf; http://www.jstatsoft.org/v05/i04/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Patefield:2000:FAC, author = "Mike Patefield", title = "Fast and Accurate Calculation of {Owen}'s {$T$} Function", journal = j-J-STAT-SOFT, volume = "5", number = "5", pages = "1--25", month = "????", year = "2000", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v005.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v05/i05; http://www.jstatsoft.org/v05/i05/t.f; http://www.jstatsoft.org/v05/i05/t.pdf; http://www.jstatsoft.org/v05/i05/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{May:2000:CTS, author = "Warren L. May and William D. Johnson", title = "Constructing two-sided simultaneous confidence intervals for multinomial proportions for small counts in a large number of cells", journal = j-J-STAT-SOFT, volume = "5", number = "6", pages = "1--24", month = "????", year = "2000", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v005.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v05/i06; http://www.jstatsoft.org/v05/i06/sison5.sas; http://www.jstatsoft.org/v05/i06/Sisonfinal.pdf; http://www.jstatsoft.org/v05/i06/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Coeurjolly:2000:SIF, author = "Jean-Fran{\c{c}}ois Coeurjolly", title = "Simulation and identification of the fractional {Brownian} motion: a bibliographical and comparative study", journal = j-J-STAT-SOFT, volume = "5", number = "7", pages = "1--53", month = "????", year = "2000", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v005.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v05/i07; http://www.jstatsoft.org/v05/i07/simest.pdf; http://www.jstatsoft.org/v05/i07/SimEstFBM; http://www.jstatsoft.org/v05/i07/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Marsaglia:2000:ZMG, author = "George Marsaglia and Wai Wan Tsang", title = "The ziggurat method for generating random variables", journal = j-J-STAT-SOFT, volume = "5", number = "8", pages = "1--7", month = "????", year = "2000", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v005.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", note = "See comment \cite{Leong:2005:CIZ}.", URL = "http://www.jstatsoft.org/v05/i08; http://www.jstatsoft.org/v05/i08/rnorrexp.c; http://www.jstatsoft.org/v05/i08/updates; http://www.jstatsoft.org/v05/i08/ziggurat.pdf", abstract = "We provide a new version of our ziggurat method for generating a random variable from a given decreasing density. It is faster and simpler than the original, and will produce, for example, normal or exponential variates at the rate of 15 million per second with a C version on a 400MHz PC. It uses two tables, integers $ k_i $ and reals $ w_i $. Some 99\% of the time, the required $x$ is produced by: Generate a random 32-bit integer $j$ and let $i$ be the index formed from the rightmost 8 bits of $j$. If $ j < k_i$ return $ x = j \times w_i$.\par We illustrate with C code that provides for inline generation of both normal and exponential variables, with a short procedure for setting up the necessary tables.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Bradley:2001:IJT, author = "James W. Bradley and R. Webster West", title = "Interactive {Java} Tools for Exploring High-dimensional Data", journal = j-J-STAT-SOFT, volume = "6", number = "1", pages = "??--??", month = "????", year = "2001", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v006.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v06/i01; http://www.jstatsoft.org/v06/i01/bradley.tar; http://www.jstatsoft.org/v06/i01/bradley/index.html; http://www.jstatsoft.org/v06/i01/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Dayton:2001:SBS, author = "C. Mitchell Dayton", title = "{SUBSET}: Best Subsets using Information Criteria", journal = j-J-STAT-SOFT, volume = "6", number = "2", pages = "1--10", month = "????", year = "2001", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v006.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v06/i02; http://www.jstatsoft.org/v06/i02/Code.rtf; http://www.jstatsoft.org/v06/i02/SUBSET.doc; http://www.jstatsoft.org/v06/i02/SUBSET.pdf; http://www.jstatsoft.org/v06/i02/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Berchtold:2001:MCC, author = "Andre Berchtold", title = "{Markov} Chain Computation for Homogeneous and Non-homogeneous Data: {MARCH 1.1} Users Guide", journal = j-J-STAT-SOFT, volume = "6", number = "3", pages = "1--81", month = "????", year = "2001", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v006.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v06/i03; http://www.jstatsoft.org/v06/i03/march-11-c-win.zip; http://www.jstatsoft.org/v06/i03/march-11-ug.ps; http://www.jstatsoft.org/v06/i03/march-ex1_0; http://www.jstatsoft.org/v06/i03/march-ex2_0; http://www.jstatsoft.org/v06/i03/march.tar.gz; http://www.jstatsoft.org/v06/i03/march_11_ug.pdf; http://www.jstatsoft.org/v06/i03/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Badsberg:2001:GC, author = "Jens Henrik Badsberg", title = "A Guide to {CoCo}", journal = j-J-STAT-SOFT, volume = "6", number = "4", pages = "1--190", month = "????", year = "2001", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v006.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v06/i04; http://www.jstatsoft.org/v06/i04/CoCo-1.5/; http://www.jstatsoft.org/v06/i04/guide-JSS-1.pdf; http://www.jstatsoft.org/v06/i04/PartII/; http://www.jstatsoft.org/v06/i04/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Somerville:2001:FSI, author = "Paul N. Somerville and Frank Bretz", title = "{FORTRAN 90} and {SAS-IML} Programs for Computation of Critical Values for Multiple Testing and Simultaneous Confidence Intervals", journal = j-J-STAT-SOFT, volume = "6", number = "5", pages = "1--14", month = "????", year = "2001", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v006.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v06/i05; http://www.jstatsoft.org/v06/i05/EXAMPLE/; http://www.jstatsoft.org/v06/i05/FORTRAN/; http://www.jstatsoft.org/v06/i05/jss2r.pdf; http://www.jstatsoft.org/v06/i05/SAS/; http://www.jstatsoft.org/v06/i05/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Antoniadis:2001:WEN, author = "Anestis Antoniadis and J{\'e}r{\'e}mie Bigot and Theofanis Sapatinas", title = "Wavelet Estimators in Nonparametric Regression: a Comparative Simulation Study", journal = j-J-STAT-SOFT, volume = "6", number = "6", pages = "1--83", month = "????", year = "2001", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v006.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v06/i06; http://www.jstatsoft.org/v06/i06/codes/; http://www.jstatsoft.org/v06/i06/html-help/; http://www.jstatsoft.org/v06/i06/jss057Rev.pdf; http://www.jstatsoft.org/v06/i06/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Scrucca:2001:NKS, author = "Luca Scrucca", title = "Nonparametric Kernel Smoothing Methods. The \pkg{sm} library in {Xlisp--Stat}", journal = j-J-STAT-SOFT, volume = "6", number = "7", pages = "1--49", month = "????", year = "2001", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v006.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v06/i07; http://www.jstatsoft.org/v06/i07/sm-doc_r.pdf; http://www.jstatsoft.org/v06/i07/sm_r.zip; http://www.jstatsoft.org/v06/i07/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Somerville:2001:NCM, author = "Paul N. Somerville", title = "Numerical Computation of Multivariate Normal and Multivariate $t$ Probabilities over Ellipsoidal Regions", journal = j-J-STAT-SOFT, volume = "6", number = "8", pages = "1--10", month = "????", year = "2001", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v006.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v06/i08; http://www.jstatsoft.org/v06/i08/EXAMPLE/; http://www.jstatsoft.org/v06/i08/FORTRAN/; http://www.jstatsoft.org/v06/i08/jss2r.pdf; http://www.jstatsoft.org/v06/i08/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Weisberg:2002:DRR, author = "Sanford Weisberg", title = "Dimension Reduction Regression in {R}", journal = j-J-STAT-SOFT, volume = "7", number = "1", pages = "1--22", month = "????", year = "2002", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v007.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v07/i01; http://www.jstatsoft.org/v07/i01/dr_1.0.tar.gz; http://www.jstatsoft.org/v07/i01/drdoc.pdf; http://www.jstatsoft.org/v07/i01/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", keywords = "R; S-Plus", } @Article{Zeileis:2002:PSR, author = "Achim Zeileis and Friedrich Leisch and Kurt Hornik and Christian Kleiber", title = "\pkg{strucchange}: an {R} package for Testing for Structural Change in Linear Regression Models", journal = j-J-STAT-SOFT, volume = "7", number = "2", pages = "1--38", month = "????", year = "2002", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v007.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v07/i02; http://www.jstatsoft.org/v07/i02/strucchange.pdf; http://www.jstatsoft.org/v07/i02/strucchange_0.9-5.tar.gz; http://www.jstatsoft.org/v07/i02/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", keywords = "R; S-Plus", } @Article{Marsaglia:2002:SDP, author = "George Marsaglia and Wai Wan Tsang", title = "Some Difficult-to-pass Tests of Randomness", journal = j-J-STAT-SOFT, volume = "7", number = "3", pages = "1--8", month = "????", year = "2002", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v007.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v07/i03; http://www.jstatsoft.org/v07/i03/tuftests.c; http://www.jstatsoft.org/v07/i03/tuftests.pdf; http://www.jstatsoft.org/v07/i03/updates", abstract = "We describe three tests of randomness --- tests that many random number generators fail. In particular, all congruential generators --- even those based on a prime modulus --- fail at least one of the tests, as do many simple generators, such as shift register and lagged Fibonacci. On the other hand, generators that pass the three tests seem to pass all the tests in the Diehard Battery of Tests.\par Note that these tests concern the randomness of a generator's output as a sequence of independent, uniform 32-bit integers. For uses where the output is converted to uniform variates in $ [0, 1) $, potential flaws of the output as integers will seldom cause problems after the conversion. Most generators seem to be adequate for producing a set of uniform reals in $ [0, 1) $, but several important applications. notably in cryptography and number theory --- for example, establishing probable primes, complexity of factoring algorithms, random partitions of large integers --- may require satisfactory performance on the kinds of tests we describe here.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Warnes:2002:HJL, author = "Gregory R. Warnes", title = "{HYDRA}: a {Java} library for {Markov} Chain {Monte Carlo}", journal = j-J-STAT-SOFT, volume = "7", number = "4", pages = "1--32", month = "????", year = "2002", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v007.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://software.biostat.washington.edu/statsoft/MCMC/Hydra; http://software.biostat.washington.edu/statsoft/MCMC/Hydra/INSTALL.html; http://www.jstatsoft.org/v07/i04; http://www.jstatsoft.org/v07/i04/Description.pdf; http://www.jstatsoft.org/v07/i04/Hydra_1.0.0.jar; http://www.jstatsoft.org/v07/i04/Hydra_1.0.0.tgz; http://www.jstatsoft.org/v07/i04/updates; http://www.jstatsoft.org/v07/i04/UserGuide.pdf", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Lipkovich:2002:BSV, author = "Ilya Lipkovich and Eric P. Smith", title = "Biplot and Singular Value Decomposition Macros for {Excel}{\copyright}", journal = j-J-STAT-SOFT, volume = "7", number = "5", pages = "1--15", month = "????", year = "2002", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v007.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v07/i05; http://www.jstatsoft.org/v07/i05/biplot01.xla; http://www.jstatsoft.org/v07/i05/BIPLOT_paper_6_6_02.doc; http://www.jstatsoft.org/v07/i05/BIPLOT_paper_6_6_02.pdf; http://www.jstatsoft.org/v07/i05/BIPLOThelp.zip; http://www.jstatsoft.org/v07/i05/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Valero-Mora:2002:CVL, author = "Pedro M. Valero-Mora and Forrest W. Young", title = "Computing and Visualizing Log-linear analysis interactively", journal = j-J-STAT-SOFT, volume = "7", number = "6", pages = "1--9", month = "????", year = "2002", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v007.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v07/i06; http://www.jstatsoft.org/v07/i06/lglin.zip; http://www.jstatsoft.org/v07/i06/updates; http://www.jstatsoft.org/v07/i06/vislog6.pdf", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Ntzoufras:2002:GVS, author = "Ioannis Ntzoufras", title = "{Gibbs} Variable Selection Using {BUGS}", journal = j-J-STAT-SOFT, volume = "7", number = "7", pages = "1--19", month = "????", year = "2002", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v007.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v07/i07; http://www.jstatsoft.org/v07/i07/gvs-bugsfiles.zip; http://www.jstatsoft.org/v07/i07/GVSusingBUGS.pdf; http://www.jstatsoft.org/v07/i07/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Lawal:2002:GFV, author = "H. Bayo Lawal and Richard A. Sundheim", title = "Generating Factor Variables for Asymmetry, Non-independence and Skew-symmetry Models in Square Contingency Tables using {SAS}", journal = j-J-STAT-SOFT, volume = "7", number = "8", pages = "1--23", month = "????", year = "2002", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v007.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v07/i08; http://www.jstatsoft.org/v07/i08/generate.pdf; http://www.jstatsoft.org/v07/i08/GENERATE.txt; http://www.jstatsoft.org/v07/i08/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Belaire-Franch:2002:RPN, author = "Jorge Belaire-Franch and Dulce Contreras", title = "Recurrence Plots in Nonlinear Time Series Analysis: Free Software", journal = j-J-STAT-SOFT, volume = "7", number = "9", pages = "1--18", month = "????", year = "2002", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v007.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v07/i09; http://www.jstatsoft.org/v07/i09/JSS_055.pdf; http://www.jstatsoft.org/v07/i09/updates", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Bonnet:2002:ZST, author = "Eric Bonnet and Yves {Van de Peer}", title = "\pkg{zt}: a Software Tool for Simple and Partial {Mantel} Tests", journal = j-J-STAT-SOFT, volume = "7", number = "10", pages = "1--12", month = "????", year = "2002", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v007.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Nov 17 22:35:43 2002", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v07/i10; http://www.jstatsoft.org/v07/i10/updates; http://www.jstatsoft.org/v07/i10/zt.pdf; http://www.jstatsoft.org/v07/i10/zt_linux.tar.tgz; http://www.jstatsoft.org/v07/i10/zt_solaris.tar.tgz", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Theus:2002:IDV, author = "Martin Theus", title = "Interactive Data Visualization using {Mondrian}", journal = j-J-STAT-SOFT, volume = "7", number = "11", pages = "1--9", month = "????", year = "2002", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v007.i11", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Tue Dec 16 17:06:19 2003", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v07/i11; http://www.jstatsoft.org/v07/i11/MondrianJSSV2.pdf", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Al-Subaihi:2002:VSM, author = "Ali A. Al-Subaihi", title = "Variable Selection in Multivariable Regression Using {SAS\slash IML}", journal = j-J-STAT-SOFT, volume = "7", number = "12", pages = "1--20", month = "????", year = "2002", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v007.i12", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Tue Dec 16 17:06:19 2003", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v07/i12; http://www.jstatsoft.org/v07/i12/mv.pdf", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Moon:2002:WBS, author = "Hojin Moon and J. Jack Lee and Hongshik Ahn and Rumiana G. Nikolova", title = "A {Web}-based Simulator for Sample Size and Power Estimation in Animal Carcinogenicity Studies", journal = j-J-STAT-SOFT, volume = "7", number = "13", pages = "1--36", month = "????", year = "2002", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v007.i13", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Tue Dec 16 17:06:19 2003", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v07/i13; http://www.jstatsoft.org/v07/i13/ACSSreview.pdf", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Tomz:2003:PCS, author = "Michael Tomz and Jason Wittenberg and Gary King", title = "\pkg{Clarify}: Software for Interpreting and Presenting Statistical Results", journal = j-J-STAT-SOFT, volume = "8", number = "1", pages = "1--30", month = "????", year = "2003", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v008.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Tue Dec 16 17:06:19 2003", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v08/i01/clarify.pdf; http://www.jstatsoft.org/v08/i1", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", xxtitle = "Clarify : Software for Interpreting and Presenting Statistical Results", } @Article{King:2003:LRR, author = "Gary King and Langche Zeng", title = "Logistic Regression in Rare Events Data", journal = j-J-STAT-SOFT, volume = "8", number = "2", pages = "1--30", month = "????", year = "2003", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v008.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Tue Dec 16 17:06:19 2003", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v08/i02/0s.pdf; http://www.jstatsoft.org/v08/i2", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", xxtitle = "Logistic Regression in Rare Events Data", } @Article{Dupont:2003:DDS, author = "William D. Dupont and W. Dale {Plummer, Jr.}", title = "Density Distribution Sunflower Plots", journal = j-J-STAT-SOFT, volume = "8", number = "3", pages = "1--5", month = "????", year = "2003", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v008.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Tue Dec 16 17:06:19 2003", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v08/i03/SunflowerPlots.pdf; http://www.jstatsoft.org/v08/i3", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", xxtitle = "Density Distribution Sunflower Plots", } @Article{Contoni:2003:RNS, author = "Eva Contoni", title = "Resistant Nonparametric Smoothing with {S-PLUS}", journal = j-J-STAT-SOFT, volume = "8", number = "3", pages = "??--??", month = "????", year = "2003", CODEN = "JSSOBK", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Tue Dec 16 17:06:19 2003", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v08/i03; http://www.jstatsoft.org/v08/i03/; http://www.jstatsoft.org/v08/i03/updates; http://www.jstatsoft.org/v08/i03/v8.txt", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", xxnote = "Check publication data: no longer at journal Web site??", } @Article{PerezSainzdeRozas:2003:UMB, author = "Gloria {Perez Sainz de Rozas}", title = "Using {Mathematica} to Build Non-Parametric Statistical Tables", journal = j-J-STAT-SOFT, volume = "8", number = "4", pages = "1--26", month = "????", year = "2003", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v008.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Tue Dec 16 17:06:19 2003", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/mathematica.bib", URL = "http://www.jstatsoft.org/v08/i04/tablasjss2.pdf; http://www.jstatsoft.org/v08/i4", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", xxtitle = "Using Mathematica to Build Non-Parametric Statistical Tables", } @Article{Trindade:2003:IMB, author = "A. Alexandre Trindade", title = "Implementing Modifed {Burg} Algorithms in Multivariate Subset Autoregressive Modeling", journal = j-J-STAT-SOFT, volume = "8", number = "5", pages = "1--68", month = "????", year = "2003", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v008.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Tue Dec 16 17:06:19 2003", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v08/i05/pap1r2.pdf; http://www.jstatsoft.org/v08/i5", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", xxtitle = "Implementing Modifed Burg Algorithms in Multivariate Subset Autoregressive Modeling", } @Article{Koenker:2003:SSM, author = "Roger Koenker and Pin Ng", title = "\pkg{SparseM}: a Sparse Matrix Package for {R}", journal = j-J-STAT-SOFT, volume = "8", number = "6", pages = "1--9", month = "????", year = "2003", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v008.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Tue Dec 16 17:06:19 2003", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v08/i06/SparseM.pdf; http://www.jstatsoft.org/v08/i6", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", xxtitle = "{SparseM} : A Sparse Matrix Package for R", } @Article{Sanil:2003:NWW, author = "Ashish Sanil and Shanti Gomatam and Alan F. Karr", title = "{NISS WebSwap}: a {Web} Service for Data Swapping", journal = j-J-STAT-SOFT, volume = "8", number = "7", pages = "1--12", month = "????", year = "2003", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v008.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Tue Dec 16 17:06:19 2003", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v08/i07/nisswebswap200206.pdf; http://www.jstatsoft.org/v08/i7", abstract = "Data swapping is a statistical disclosure limitation practice that alters records in the data to be released by switching values of attributes across pairs of records in a fraction of the original data.\par Web Services are an exciting new form of distributed computing that allow users to invoke remote applications nearly transparently. National Institute of Statistical Sciences (NISS) has recently started hosting NISS Web Services as a service and example to the statistical sciences community. In this paper we describe and provide usage information for NISS WebSwap the initial NISS Web Service, which swaps one or more attributes (fields) between user-specified records in a microdata file, uploading the original data file from the user's computer and downloading the file containing the swapped records.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", xxtitle = "{NISS} {WebSwap} : A Web Service for Data Swapping", } @Article{Chang:2003:MGP, author = "Chwen-Ming Chang", title = "{MinPROMEP}: Generation of Partially Replicated Minimal Orthogonal Main-effect Plans Using a Novel Algorithm", journal = j-J-STAT-SOFT, volume = "8", number = "8", pages = "1--15", month = "????", year = "2003", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v008.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Tue Dec 16 17:06:19 2003", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v08/i08/paper.pdf; http://www.jstatsoft.org/v08/i8", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", xxtitle = "{MinPROMEP} : Generation of Partially Replicated Minimal Orthogonal Main-Effect Plans Using a Novel Algorithm", } @Article{Fotouhi:2003:CEP, author = "Ali Reza Fotouhi", title = "Comparisons of Estimation Procedures for Nonlinear Multilevel Models", journal = j-J-STAT-SOFT, volume = "8", number = "9", pages = "1--39", month = "????", year = "2003", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v008.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Tue Dec 16 17:06:19 2003", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v08/i09/Paper.pdf; http://www.jstatsoft.org/v08/i9", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", xxtitle = "Comparisons of Estimation Procedures for Nonlinear Multilevel Models", } @Article{Firth:2003:CFP, author = "David Firth", title = "{CGIwithR}: Facilities for processing {Web} forms using {R}", journal = j-J-STAT-SOFT, volume = "8", number = "10", pages = "1--8", month = "????", year = "2003", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v008.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Tue Dec 16 17:06:19 2003", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v08/i10; http://www.jstatsoft.org/v08/i10/CGIwithR-overview.pdf", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Ligges:2003:SRP, author = "Uwe Ligges and Martin M{\"a}chler", title = "\pkg{Scatterplot3d} --- an {R} package for Visualizing Multivariate Data", journal = j-J-STAT-SOFT, volume = "8", number = "11", pages = "1--20", month = "????", year = "2003", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v008.i11", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Tue Dec 16 17:06:19 2003", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v08/i11; http://www.jstatsoft.org/v08/i11/JSSs3d.pdf", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Liu:2003:EAU, author = "Honghu Liu and Tongtong Wu", title = "Estimating the Area under a Receiver Operating Characteristic Curve For Repeated Measures Design", journal = j-J-STAT-SOFT, volume = "8", number = "12", pages = "1--18", month = "????", year = "2003", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v008.i12", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Tue Dec 16 17:06:19 2003", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v08/i12; http://www.jstatsoft.org/v08/i12/roc.pdf", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Kuonen:2003:NIP, author = "Diego Kuonen", title = "Numerical Integration in {S-PLUS} or {R}: a Survey", journal = j-J-STAT-SOFT, volume = "8", number = "13", pages = "1--14", month = "????", year = "2003", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v008.i13", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Tue Dec 16 17:06:19 2003", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v08/i13; http://www.jstatsoft.org/v08/i13/article.pdf", abstract = "This paper reviews current quadrature methods for approximate calculation of integrals within S-Plus or R. Starting with the general framework, Gaussian quadrature will be discussed first, followed by adaptive rules and Monte Carlo methods. Finally, a comparison of the methods presented is given. The aim of this survey paper is to help readers, not expert in computing, to apply numerical integration methods and to realize that numerical analysis is an art, not a science.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", keywords = "Adaptive method; Comparison; Gaussian quadrature; Monte Carlo method; Quadrature", } @Article{Marsaglia:2003:XR, author = "George Marsaglia", title = "Xorshift {RNGs}", journal = j-J-STAT-SOFT, volume = "8", number = "14", pages = "1--6", month = "????", year = "2003", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v008.i14", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Tue Dec 16 17:06:19 2003", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/prng.bib", note = "See \cite{Brent:2004:NMX} for corrections and the equivalence of xorshift generators and the well-understood linear feedback shift register generators. See also \cite{Salmon:2011:PRN,Saito:2012:DCS,Steele:2014:FSP} for the failure of Marsaglia's {\tt xorwow()} generator from this paper.", URL = "http://www.jstatsoft.org/v08/i14; http://www.jstatsoft.org/v08/i14/xorshift.pdf", abstract = "Description of a class of simple, extremely fast random number generators (RNGs) with periods $ 2^k - 1 $ for $ k = 32, 64, 96, 128, 160, 192 $. These RNGs seem to pass tests of randomness very well.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Fox:2003:EDR, author = "John Fox", title = "Effect Displays in {R} for Generalised Linear Models", journal = j-J-STAT-SOFT, volume = "8", number = "15", pages = "1--27", month = "????", year = "2003", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v008.i15", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Tue Dec 16 17:06:19 2003", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v08/i15; http://www.jstatsoft.org/v08/i15/effect-displays-revised.pdf", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Peng:2003:MDP, author = "Roger D. Peng", title = "Multi-dimensional Point Process Models in {R}", journal = j-J-STAT-SOFT, volume = "8", number = "16", pages = "1--27", month = "????", year = "2003", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v008.i16", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Tue Dec 16 17:06:19 2003", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v08/i16; http://www.jstatsoft.org/v08/i16/ptprocR102.pdf", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Esty:2003:BPP, author = "Warren W. Esty and Jeffrey D. Banfield", title = "The Box-Percentile Plot", journal = j-J-STAT-SOFT, volume = "8", number = "17", pages = "1--14", month = "????", year = "2003", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v008.i17", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Tue Dec 16 17:06:19 2003", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v08/i17; http://www.jstatsoft.org/v08/i17/BoxPercentilePlot.pdf", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Marsaglia:2003:EKD, author = "George Marsaglia and Wai Wan Tsang and Jingbo Wang", title = "Evaluating {Kolmogorov}'s Distribution", journal = j-J-STAT-SOFT, volume = "8", number = "18", pages = "1--4", month = "????", year = "2003", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v008.i18", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Tue Dec 16 17:06:19 2003", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v08/i18; http://www.jstatsoft.org/v08/i18/k.pdf", abstract = "Kolmogorov's goodness-of-fit measure, $ D_n $, for a sample CDF has consistently been set aside for methods such as the $ D_n^+ $ or $ D_n^- $; of Smirnov, primarily, it seems, because of the difficulty of computing the distribution of $ D_n $. As far as we know, no easy way to compute that distribution has ever been provided in the 70+ years since Kolmogorov's fundamental paper. We provide one here, a C procedure that provides $ \mbox {Pr}(D_n < d) $ with 13--15 digit accuracy for $n$ ranging from $2$ to at least $ 16000$. We assess the (rather slow) approach to limiting form, and because computing time can become excessive for probabilities $ > 0.999$ with $n$'s of several thousand, we provide a quick approximation that gives accuracy to the 7th digit for such cases.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", } @Article{Murdoch:2003:POR, author = "Duncan Murdoch", title = "\pkg{Orientlib}: An {R} Package for Orientation Data", journal = j-J-STAT-SOFT, volume = "8", number = "19", pages = "1--11", month = "????", year = "2003", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v008.i19", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Tue Dec 16 17:06:19 2003", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v08/i19; http://www.jstatsoft.org/v08/i19/orientlib_paper.pdf", abstract = "\pkg{Orientlib} is an R package to facilitate working with orientation data, i.e. elements of SO(3). It provides automatic translation between different representations of orientations, including rotation matrices, quaternions, Euler angles and skew-symmetric matrices; it also has functions for fitting regression models and displaying orientations. This paper reviews simple properties of orientation data and describes \pkg{Orientlib}.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", keywords = "Euler angles; orientation data; quaternions; rotation matrices; SO(3)", } @Article{Botcher:2003:PDP, author = "Susanne G. B{\o}tcher and Claus Dethlefsen", title = "\pkg{deal}: a Package for Learning {Bayesian} Networks", journal = j-J-STAT-SOFT, volume = "8", number = "20", pages = "1--40", day = "28", month = dec, year = "2003", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v008.i20", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Feb 25 11:20:56 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v08/i20/deal.pdf; http://www.jstatsoft.org/v08/i20/deal_1.2-4.tar.gz; http://www.jstatsoft.org/v08/i20/jcgs.tex", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", xxtitle = "deal : A Package for Learning Bayesian Networks", } @Article{Khan:2003:VBS, author = "Haseeb Ahmad Khan", title = "A {Visual Basic} Software for Computing {Fisher}'s Exact Probability", journal = j-J-STAT-SOFT, volume = "8", number = "21", pages = "1--7", day = "28", month = dec, year = "2003", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v008.i21", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Feb 25 11:20:56 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v08/i21/Article-JSS.PDF", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", xxtitle = "A Visual Basic Software for Computing Fisher's Exact Probability", } @Article{Ngo:2004:SMM, author = "Long Ngo and Matthew P. Wand", title = "Smoothing with Mixed Model Software", journal = j-J-STAT-SOFT, volume = "9", number = "1", pages = "1--54", day = "1", month = jan, year = "2004", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v009.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Feb 25 11:20:56 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v09/i01/Abstract%20for%20JCGS.txt; http://www.jstatsoft.org/v09/i01/code.zip; http://www.jstatsoft.org/v09/i01/softpaper_010804.pdf", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", xxtitle = "Smoothing with Mixed Model Software", } @Article{Marsaglia:2004:EAD, author = "George Marsaglia and John Marsaglia", title = "Evaluating the {Anderson--Darling} Distribution", journal = j-J-STAT-SOFT, volume = "9", number = "2", pages = "1--5", day = "25", month = feb, year = "2004", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v009.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Feb 25 11:20:56 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v09/i02/ad.pdf; http://www.jstatsoft.org/v09/i02/ADinf.c; http://www.jstatsoft.org/v09/i02/AnDarl.c", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", xxtitle = "Evaluating the Anderson-Darling Distribution", } @Article{Miller:2004:CMS, author = "Alan J. Miller", title = "A Collection of Mathematical and Statistical Routines in {FORTRAN 90}", journal = j-J-STAT-SOFT, volume = "9", number = "3", pages = "1--3", day = "25", month = feb, year = "2004", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v009.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Feb 25 11:20:56 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v09/i03/F90lib.pdf", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", xxtitle = "A Collection of Mathematical and Statistical Routines in Fortran 90", } @Article{Al-Subaihi:2004:SCM, author = "Ali A. Al-Subaihi", title = "Simulating Correlated Multivariate Pseudorandom Numbers", journal = j-J-STAT-SOFT, volume = "9", number = "4", pages = "1--20", month = "????", year = "2004", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v009.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Dec 04 09:18:40 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=85&url=v09/i04/paper.pdf&ct=1", accepted = "2004-02-29", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2003-01-04", xxtitle = "Simulating Correlated Multivariate Pseudorandom Numbers", } @Article{West:2004:IS, author = "R. Webster West and Yuping Wu and Duane Heydt", title = "An Introduction to {StatCrunch 3.0}", journal = j-J-STAT-SOFT, volume = "9", number = "5", pages = "??--??", month = "????", year = "2004", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v009.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Dec 04 09:18:40 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=86&url=v09/i05/scjss/&ct=1", accepted = "2004-03-05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2003-10-10", xxtitle = "An Introduction to {StatCrunch} 3.0", } @Article{Strand:2004:SNT, author = "Matthew Strand and Shalender Bhasin and Hsiao-Pin Liu", title = "A Set of Nonparametric Tests for Experiments with Lattice-Ordered Means: Theory, Programs, and Applications", journal = j-J-STAT-SOFT, volume = "9", number = "6", pages = "1--16", month = "????", year = "2004", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v009.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Dec 04 09:18:40 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=87&url=v09/i06/paper.pdf&ct=1", accepted = "2004-03-20", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2003-07-09", xxtitle = "A Set of Nonparametric Tests for Experiments with Lattice-Ordered Means: Theory, Programs, and Applications", } @Article{Elam:2004:SSS, author = "Matthew E. Elam and Kenneth E. Case and Jong-Min Kim", title = "Second Stage Short Run {$ (\bar X, v_c) $} and {$ (\bar X, s_c) $} Control Charts", journal = j-J-STAT-SOFT, volume = "9", number = "7", pages = "1--31", month = "????", year = "2004", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v009.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Dec 04 09:18:40 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=88&url=v09/i07/paper.pdf&ct=1", accepted = "2004-03-23", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2003-08-29", xxtitle = "Second Stage Short Run ( X , v c ) and ( X , s c ) Control Charts", } @Article{Lumley:2004:ACS, author = "Thomas Lumley", title = "Analysis of Complex Survey Samples", journal = j-J-STAT-SOFT, volume = "9", number = "8", pages = "1--19", month = "????", year = "2004", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v009.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Dec 04 09:18:40 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=89&url=v09/i08/paper.pdf&ct=1", accepted = "2004-04-15", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2003-08-21", xxtitle = "Analysis of Complex Survey Samples", } @Article{Wiens:2004:MSP, author = "Douglas P. Wiens", title = "{MATCH} --- a Software Package for Robust Profile Matching Using {S-Plus}", journal = j-J-STAT-SOFT, volume = "10", number = "1", pages = "1--35", month = "????", year = "2004", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v010.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Dec 04 09:18:40 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=91&url=v10/i01/manual2.pdf&ct=1", accepted = "2004-04-26", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2002-10-06", xxtitle = "{MATCH} - A Software Package for Robust Profile Matching Using S-{PLUS}", } @Article{Cantoni:2004:RNS, author = "Eva Cantoni", title = "Resistant Nonparametric Smoothing with {S-PLUS}", journal = j-J-STAT-SOFT, volume = "10", number = "2", pages = "1--6", month = "????", year = "2004", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v010.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Dec 04 09:18:40 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/counter.php?id=93&url=v10/i02/Mspline4.pdf&ct=1", accepted = "2004-04-26", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2002-07-17", xxtitle = "Resistant Nonparametric Smoothing with S-{PLUS}", } @Article{Edlund:2004:CMS, author = "Ove Edlund", title = "{CMregr} --- a {Matlab} software package for finding {CM}-Estimates for Regression", journal = j-J-STAT-SOFT, volume = "10", number = "3", pages = "1--11", month = "????", year = "2004", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v010.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Dec 04 09:18:40 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=92&url=v10/i03/CMregr_rev2.pdf&ct=1", accepted = "2004-04-26", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2002-08-20", xxtitle = "{CMregr} - A Matlab Software Package for Finding {CM}-Estimates for Regression", } @Article{Cantoni:2004:ARQ, author = "Eva Cantoni", title = "Analysis of Robust Quasi-deviances for Generalized Linear Models", journal = j-J-STAT-SOFT, volume = "10", number = "4", pages = "1--9", month = "????", year = "2004", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v010.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Dec 04 09:18:40 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=94&url=v10/i04/robGLMquasidev1.pdf&ct=1", accepted = "2004-04-26", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2002-11-07", xxtitle = "Analysis of Robust Quasi-Deviances for Generalized Linear Models", } @Article{Stromberg:2004:WWS, author = "Arnold J. Stromberg", title = "Why Write Statistical Software? The Case of Robust Statistical Methods", journal = j-J-STAT-SOFT, volume = "10", number = "5", pages = "1--8", month = "????", year = "2004", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v010.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Dec 04 09:18:40 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=90&url=v10/i05/finalintro.pdf&ct=1", accepted = "2004-04-26", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2004-01-26", xxtitle = "Why Write Statistical Software? The Case of Robust Statistical Methods", } @Article{Baiocchi:2004:UPS, author = "Giovanni Baiocchi", title = "Using {Perl} for Statistics: Data Processing and Statistical Computing", journal = j-J-STAT-SOFT, volume = "11", number = "1", pages = "1--81", month = "????", year = "2004", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v011.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Dec 04 09:18:40 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=95&url=v11/i01/paper.pdf&ct=1", accepted = "2004-05-16", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2003-02-21", xxtitle = "Using Perl for Statistics: Data Processing and Statistical Computing", } @Article{Mathias:2004:ASA, author = "Adolf Mathias and Florian Grond and Ramon Guardans and Detlef Seese and Miguel Canela and Hans H. Diebner", title = "Algorithms for Spectral Analysis of Irregularly Sampled Time Series", journal = j-J-STAT-SOFT, volume = "11", number = "2", pages = "1--30", month = "????", year = "2004", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v011.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Dec 04 09:18:40 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=96&url=v11/i02/paper.pdf&ct=1", accepted = "2004-05-19", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2003-07-22", xxtitle = "Algorithms for Spectral Analysis of Irregularly Sampled Time Series", } @Article{Marsaglia:2004:FGD, author = "George Marsaglia and Wai Wan Tsang and Jingbo Wang", title = "Fast Generation of Discrete Random Variables", journal = j-J-STAT-SOFT, volume = "11", number = "3", pages = "1--8", month = "????", year = "2004", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v011.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Dec 04 09:18:40 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=99&url=v11/i03/discrete.pdf&ct=1", accepted = "2004-07-12", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2004-06-05", xxtitle = "Fast Generation of Discrete Random Variables", } @Article{Marsaglia:2004:END, author = "George Marsaglia", title = "Evaluating the Normal Distribution", journal = j-J-STAT-SOFT, volume = "11", number = "4", pages = "1--7", month = "????", year = "2004", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v011.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Dec 04 09:18:40 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=100&url=v11/i04/cphi.pdf&ct=1", accepted = "2004-07-18", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", remark = "This article exhibits accurate, compact, and fast algorithms for computation of the normal distribution function and the complementary normal distribution, which have a simple relation to the error function and the complementary error function. They appear to be improvements on almost all previously-published algorithms for these functions. However, closer study shows that the complementary normal distribution function has an unchecked out-of-bounds array access for $ |x| >= 17 $, and its Taylor series sum has poor convergence because the tabulated intervals are twice too wide. The Taylor series sum for the normal distribution function is expanded around $ x = 0 $, and thus has poor convergence for large $ |x| $. Neither function takes into account the accuracy loss when the computed result is the larger of the two (their sum is one, and their range is $ [ - \infty, + \infty]$), although the text discusses the problem. The article also discusses the historical origin of the term ``error function'', tracing it to J. W. Glaisher in 1871.", submitted = "2004-06-05", xxtitle = "Evaluating the Normal Distribution", } @Article{Brent:2004:NMX, author = "Richard P. Brent", title = "Note on {Marsaglia}'s Xorshift Random Number Generators", journal = j-J-STAT-SOFT, volume = "11", number = "5", pages = "1--5", month = "????", year = "2004", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v011.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Dec 04 09:18:40 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", note = "See \cite{Marsaglia:2003:XR}. This article shows the equivalence of xorshift generators and the well-understood linear feedback shift register generators.", URL = "http://www.jstatsoft.org/counter.php?id=101&url=v11/i05/v11i05.pdf&ct=1", accepted = "2004-08-25", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2004-07-07", xxtitle = "Note on Marsaglia's Xorshift Random Number Generators", } @Article{Hojsgaard:2004:PMP, author = "S{\o}ren H{\o}jsgaard", title = "The \pkg{mimR} Package for Graphical Modelling in {R}", journal = j-J-STAT-SOFT, volume = "11", number = "6", pages = "1--13", month = "????", year = "2004", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v011.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Dec 04 09:18:40 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/counter.php?id=102&url=v11/i06/v11i06.pdf&ct=1", accepted = "2004-10-02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2004-07-06", xxtitle = "The {mimR} Package for Graphical Modelling in R", } @Article{King:2004:TPE, author = "Gary King", title = "{{\textfrak{E}I}}: a Program for Ecological Inference", journal = j-J-STAT-SOFT, volume = "11", number = "7", pages = "1--41", month = "????", year = "2004", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v011.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Dec 04 09:18:40 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=103&url=v11/i07/v11i07.pdf&ct=1", accepted = "2004-09-28", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2003-09-29", xxtitle = "{EI} : A Program for Ecological Inference", } @Article{Leisch:2004:FGF, author = "Friedrich Leisch", title = "{FlexMix}: a General Framework for Finite Mixture Models and Latent Class Regression in {R}", journal = j-J-STAT-SOFT, volume = "11", number = "8", pages = "1--18", month = "????", year = "2004", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v011.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Dec 04 09:18:40 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/counter.php?id=104&url=v11/i08/v11i08.pdf&ct=1", accepted = "2004-10-18", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2004-04-19", xxtitle = "{FlexMix}: A General Framework for Finite Mixture Models and Latent Class Regression in R", } @Article{Karatzoglou:2004:PKS, author = "Alexandros Karatzoglou and Alex Smola and Kurt Hornik and Achim Zeileis", title = "\pkg{kernlab} --- An {S4} Package for Kernel Methods in {R}", journal = j-J-STAT-SOFT, volume = "11", number = "9", pages = "1--20", month = "????", year = "2004", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v011.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Dec 04 09:18:40 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/counter.php?id=105&url=v11/i09/v11i09.pdf&ct=1", accepted = "2004-11-02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2004-08-15", xxtitle = "kernlab - An S4 Package for Kernel Methods in R", } @Article{Zeileis:2004:ECH, author = "Achim Zeileis", title = "Econometric Computing with {HC} and {HAC} Covariance Matrix Estimators", journal = j-J-STAT-SOFT, volume = "11", number = "10", pages = "1--17", month = "????", year = "2004", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v011.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Dec 04 09:18:40 2004", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=106&url=v11/i10/v11i10.pdf&ct=1", accepted = "2004-11-29", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2004-11-09", xxtitle = "Econometric Computing with {HC} and {HAC} Covariance Matrix Estimators", } @Article{Firth:2005:BTM, author = "David Firth", title = "{Bradley--Terry} Models in {R}", journal = j-J-STAT-SOFT, volume = "12", number = "1", pages = "1--12", month = "????", year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v012.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed May 18 11:18:51 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/counter.php?id=107&url=v12/i01&ct=2; http://www.jstatsoft.org/counter.php?id=107&url=v12/i01/v12i01.pdf&ct=1", accepted = "2005-01-07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2005-01-07", xxtitle = "Bradley-Terry Models in R", } @Article{Jamshidian:2005:SSI, author = "Mortaza Jamshidian and Wei Liu and Ying Zhang and Farid Jamshidian", title = "{Simreg}: a Software Including Some New Developments in Multiple Comparison and Simultaneous Confidence Bands for Linear Regression Models", journal = j-J-STAT-SOFT, volume = "12", number = "2", pages = "1--22", month = "????", year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v012.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed May 18 11:18:51 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=109&url=v12/i02&ct=2; http://www.jstatsoft.org/counter.php?id=109&url=v12/i02/v12i02.pdf&ct=1", accepted = "2005-01-07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2005-01-07", } @Article{Sturtz:2005:PRP, author = "Sibylle Sturtz and Uwe Ligges and Andrew Gelman", title = "\pkg{R2WinBUGS}: a Package for Running {WinBUGS} from {R}", journal = j-J-STAT-SOFT, volume = "12", number = "3", pages = "1--16", month = "????", year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v012.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed May 18 11:18:51 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/counter.php?id=110&url=v12/i03&ct=2; http://www.jstatsoft.org/counter.php?id=110&url=v12/i03/v12i03.pdf&ct=1", accepted = "2005-01-07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2005-01-07", xxtitle = "R2WinBUGS : A Package for Running {WinBUGS} from R", } @Article{Mineo:2005:STE, author = "Angelo M. Mineo and Mariantonietta Ruggieri", title = "A Software Tool for the Exponential Power Distribution: The \pkg{normalp} Package", journal = j-J-STAT-SOFT, volume = "12", number = "4", pages = "1--24", month = "????", year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v012.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed May 18 11:18:51 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=111&url=v12/i04&ct=2; http://www.jstatsoft.org/counter.php?id=111&url=v12/i04/v12i04.pdf&ct=1", accepted = "2005-01-12", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2005-01-12", xxtitle = "A Software Tool for the Exponential Power Distribution: The normalp package", } @Article{Ritz:2005:BAU, author = "Christian Ritz and Jens C. Streibig", title = "Bioassay Analysis Using {R}", journal = j-J-STAT-SOFT, volume = "12", number = "5", pages = "1--22", month = "????", year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v012.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed May 18 11:18:51 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/counter.php?id=112&url=v12/i05&ct=2; http://www.jstatsoft.org/counter.php?id=112&url=v12/i05/v12i05.pdf&ct=1", accepted = "2005-01-19", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2005-01-19", xxtitle = "Bioassay Analysis using R", } @Article{Baddeley:2005:PSR, author = "Adrian Baddeley and Rolf Turner", title = "\pkg{spatstat}: An {R} Package for Analyzing Spatial Point Patterns", journal = j-J-STAT-SOFT, volume = "12", number = "6", pages = "1--42", month = "????", year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v012.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed May 18 11:18:51 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/counter.php?id=113&url=v12/i06&ct=2; http://www.jstatsoft.org/counter.php?id=113&url=v12/i06/v12i06.pdf&ct=1", accepted = "2005-01-26", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2005-01-26", xxtitle = "spatstat : An R Package for Analyzing Spatial Point Patterns", } @Article{Leong:2005:CIZ, author = "Philip Leong and Guanglie Zhang and Dong-U Lee and Wayne Luk and John Villasenor", title = "A Comment on the Implementation of the Ziggurat Method", journal = j-J-STAT-SOFT, volume = "12", number = "7", pages = "1--44", month = "????", year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v012.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed May 18 11:18:51 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", note = "See \cite{Marsaglia:2000:ZMG}.", URL = "http://www.jstatsoft.org/counter.php?id=114&url=v12/i07&ct=2; http://www.jstatsoft.org/counter.php?id=114&url=v12/i07/v12i07.pdf&ct=1", abstract = "We show that the short period of the uniform random number generator in the published implementation of Marsaglia and Tsang's Ziggurat method for generating random deviates can lead to poor distributions. Changing the uniform random number generator used in its implementation fixes this issue.", accepted = "2005-02-08", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2005-02-08", xxtitle = "A Comment on the Implementation of the Ziggurat Method", } @Article{Johnstone:2005:ERP, author = "Iain M. Johnstone and Bernard W. Silverman", title = "{EbayesThresh}: {R} Programs for Empirical {Bayes} Thresholding", journal = j-J-STAT-SOFT, volume = "12", number = "8", pages = "1--38", month = "????", year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v012.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed May 18 11:18:51 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/counter.php?id=125&url=v12/i08&ct=2; http://www.jstatsoft.org/counter.php?id=125&url=v12/i08/v12i08.pdf&ct=1", accepted = "2005-04-06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2005-04-06", xxtitle = "{EbayesThresh} : R Programs for Empirical Bayes Thresholding", } @Article{Weisberg:2005:LOW, author = "Sanford Weisberg", title = "Lost Opportunities: Why We Need a Variety of Statistical Languages", journal = j-J-STAT-SOFT, volume = "13", number = "1", pages = "1--12", month = "????", year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v013.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed May 18 11:18:51 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=115&url=v13/i01&ct=2; http://www.jstatsoft.org/counter.php?id=115&url=v13/i01/v13i01.pdf&ct=1", accepted = "2004-12-20", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", remark = "Special Volume: Lisp--Stat, Past, Present and Future. Pedro Valero-Mora and Frederic Udina, Guest Editors.", submitted = "2004-12-20", xxtitle = "Lost Opportunities: Why We Need a Variety of Statistical Languages", } @Article{Medrano-Soto:2005:BBA, author = "Arturo Medrano-Soto and J. Andr{\'e}s Christen and Julio Collado-Vides", title = "{BClass}: a {Bayesian} Approach Based on Mixture Models for Clustering and Classification of Heterogeneous Biological Data", journal = j-J-STAT-SOFT, volume = "13", number = "2", pages = "1--18", month = "????", year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v013.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed May 18 11:18:51 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=116&url=v13/i02&ct=2; http://www.jstatsoft.org/counter.php?id=116&url=v13/i02/v13i02.pdf&ct=1", accepted = "2004-12-20", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", remark = "Special Volume: Lisp--Stat, Past, Present and Future. Pedro Valero-Mora and Frederic Udina, Guest Editors.", submitted = "2004-12-20", xxtitle = "{BClass} : A Bayesian Approach Based on Mixture Models for Clustering and Classification of Heterogeneous Biological Data", } @Article{Iversen:2005:VED, author = "Philip W. Iversen and Mervyn G. Marasinghe", title = "Visualizing Experimental Designs for Balanced {ANOVA} Models", journal = j-J-STAT-SOFT, volume = "13", number = "3", pages = "1--18", month = "????", year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v013.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed May 18 11:18:51 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=117&url=v13/i03&ct=2; http://www.jstatsoft.org/counter.php?id=117&url=v13/i03/v13i03.pdf&ct=1", accepted = "0000-00-00", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", remark = "Special Volume: Lisp--Stat, Past, Present and Future. Pedro Valero-Mora and Frederic Udina, Guest Editors.", submitted = "0000-00-00", xxtitle = "Visualizing Experimental Designs for Balanced {ANOVA} Models using Lisp-Stat", } @Article{Narasimhan:2005:LSJ, author = "Balasubramanian Narasimhan", title = "{Lisp--Stat} to {Java} to {R}", journal = j-J-STAT-SOFT, volume = "13", number = "4", pages = "1--10", month = "????", year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v013.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed May 18 11:18:51 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/counter.php?id=118&url=v13/i04&ct=2; http://www.jstatsoft.org/counter.php?id=118&url=v13/i04/v13i04.pdf&ct=1", accepted = "0000-00-00", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", remark = "Special Volume: Lisp--Stat, Past, Present and Future. Pedro Valero-Mora and Frederic Udina, Guest Editors.", submitted = "0000-00-00", xxtitle = "Lisp-Stat to Java to R", } @Article{Udina:2005:IBC, author = "Frederic Udina", title = "Interactive Biplot Construction", journal = j-J-STAT-SOFT, volume = "13", number = "5", pages = "1--16", month = "????", year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v013.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed May 18 11:18:51 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=119&url=v13/i05&ct=2; http://www.jstatsoft.org/counter.php?id=119&url=v13/i05/v13i05.pdf&ct=1", accepted = "0000-00-00", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", remark = "Special Volume: Lisp--Stat, Past, Present and Future. Pedro Valero-Mora and Frederic Udina, Guest Editors.", submitted = "0000-00-00", xxtitle = "Interactive Biplot Construction", } @Article{Josselin:2005:IGI, author = "Didier Josselin", title = "Interactive Geographical Information System using {Lisp--Stat}: Prototypes and Applications", journal = j-J-STAT-SOFT, volume = "13", number = "6", pages = "1--34", month = "????", year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v013.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed May 18 11:18:51 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=122&url=v13/i06&ct=2; http://www.jstatsoft.org/counter.php?id=122&url=v13/i06/v13i06.pdf&ct=1", accepted = "0000-00-00", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", remark = "Special Volume: Lisp--Stat, Past, Present and Future. Pedro Valero-Mora and Frederic Udina, Guest Editors.", submitted = "0000-00-00", xxtitle = "Interactive Geographical Information System using Lisp-Stat : Prototypes and Applications", } @Article{deLeeuw:2005:AXS, author = "Jan de Leeuw", title = "On Abandoning {XLISP--STAT}", journal = j-J-STAT-SOFT, volume = "13", number = "7", pages = "1--5", month = "????", year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v013.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed May 18 11:18:51 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=121&url=v13/i07&ct=2; http://www.jstatsoft.org/counter.php?id=121&url=v13/i07/v13i07.pdf&ct=1", accepted = "0000-00-00", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", remark = "Special Volume: Lisp--Stat, Past, Present and Future. Pedro Valero-Mora and Frederic Udina, Guest Editors.", submitted = "0000-00-00", xxtitle = "On Abandoning {XLISP}-{STAT}", } @Article{Molina:2005:VTT, author = "J. Gabriel Molina and Rub{\'e}n Ledesma and Pedro M. Valero-Mora and Forrest W. Young", title = "A Video Tour through {ViSta 6.4}", journal = j-J-STAT-SOFT, volume = "13", number = "8", pages = "1--13", month = "????", year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v013.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed May 18 11:18:51 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=122&url=v13/i08&ct=2; http://www.jstatsoft.org/counter.php?id=122&url=v13/i08/v13i08.pdf&ct=1", accepted = "0000-00-00", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", remark = "Special Volume: Lisp--Stat, Past, Present and Future. Pedro Valero-Mora and Frederic Udina, Guest Editors.", submitted = "0000-00-00", xxtitle = "A Video Tour through {ViSta} 6.4, a Visual Statistical System based on Lisp-Stat", } @Article{Tierney:2005:SNP, author = "Luke Tierney", title = "Some Notes on the Past and Future of {Lisp--Stat}", journal = j-J-STAT-SOFT, volume = "13", number = "9", pages = "1--15", month = "????", year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v013.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed May 18 11:18:51 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=123&url=v13/i09&ct=2; http://www.jstatsoft.org/counter.php?id=123&url=v13/i09/v13i09.pdf&ct=1", accepted = "0000-00-00", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", remark = "Special Volume: Lisp--Stat, Past, Present and Future. Pedro Valero-Mora and Frederic Udina, Guest Editors.", submitted = "0000-00-00", xxtitle = "Some Notes on the Past and Future of Lisp-Stat", } @Article{Valero-Mora:2005:HLS, author = "Pedro Valero-Mora and Frederic Udina", title = "The Health of {Lisp--Stat}", journal = j-J-STAT-SOFT, volume = "13", number = "10", pages = "1--5", month = "????", year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v013.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed May 18 11:18:51 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=124&url=v13/i10&ct=2; http://www.jstatsoft.org/counter.php?id=124&url=v13/i10/v13i10.pdf&ct=1", accepted = "0000-00-00", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", remark = "Special Volume: Lisp--Stat, Past, Present and Future. Pedro Valero-Mora and Frederic Udina, Guest Editors.", submitted = "0000-00-00", xxtitle = "The Health of Lisp-Stat", } @Article{Boyle:2005:BRA, author = "Thomas Boyle", title = "Book Review: {{\booktitle{The Analysis of Gene Expression Data: Methods and Software}}}", journal = j-J-STAT-SOFT, volume = "14", number = "BR-1", pages = "1--2", month = apr, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.b01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v14/b01", abstract = "In this article a procedure is proposed to simulate fractional fields, which are non Gaussian counterpart of the fractional Brownian motion. These fields, called real harmonizable (multi)fractional L{\'e}vy motions, allow fixing the H{\"o}lder exponent at each point. FracSim is an R package developed in R and C language. Parallel computers have been also used.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-04-14; Accepted 2005-04-14", } @Article{Murdoch:2005:BRC, author = "Duncan Murdoch", title = "Book Review: {{\booktitle{Computational Statistics}}}", journal = j-J-STAT-SOFT, volume = "14", number = "BR-2", pages = "1--4", month = apr, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.b02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v14/b02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-04-17; Accepted 2005-04-17", } @Article{Pierce:2005:BRI, author = "John G. Pierce", title = "Book Review: {{\booktitle{Introduction to MATLAB with Numerical Preliminaries}}}", journal = j-J-STAT-SOFT, volume = "14", number = "BR-3", pages = "1--3", month = aug, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.b03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v14/b03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-08-01; Accepted 2005-08-01", } @Article{deLeeuw:2005:BRM, author = "Jan de Leeuw", title = "Book Review: {{\booktitle{Modern Multidimensional Scaling: Theory and Applications}} (Second Edition)}", journal = j-J-STAT-SOFT, volume = "14", number = "BR-4", pages = "1--2", month = sep, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.b04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v14/b04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-09-01; Accepted 2005-09-01", } @Article{deLeeuw:2005:BRC, author = "Jan de Leeuw", title = "Book Review: {{\booktitle{Correspondence Analysis and Data Coding with Java and R}}}", journal = j-J-STAT-SOFT, volume = "14", number = "BR-5", pages = "1--2", month = sep, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.b05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v14/b05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-09-08; Accepted 2005-09-08", } @Article{deLeeuw:2005:BRR, author = "Jan de Leeuw", title = "Book Review: {{\booktitle{An R and S-PLUS Companion to Multivariate Analysis}}}", journal = j-J-STAT-SOFT, volume = "14", number = "BR-6", pages = "1--3", month = sep, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.b06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v14/b06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-09-16; Accepted 2005-09-16", } @Article{Gould:2005:BRU, author = "Robert Gould", title = "Book Review: {{\booktitle{Using R for Introductory Statistics}}}", journal = j-J-STAT-SOFT, volume = "14", number = "BR-7", pages = "1--3", month = nov, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.b07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v14/b07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-11-09; Accepted 2005-11-09", } @Article{Fox:2005:BRB, author = "John Fox", title = "Book Review: {{\booktitle{The Basics of S-Plus}}, Fourth Edition}", journal = j-J-STAT-SOFT, volume = "14", number = "BR-8", pages = "1--3", month = dec, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.b08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v14/b08", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-12-15; Accepted 2005-12-15", } @Article{Nason:2005:PPS, author = "Guy Nason", title = "\pkg{pinktoe}: Semi-automatic Traversal of Trees", journal = j-J-STAT-SOFT, volume = "14", number = "1", pages = "1--11", day = "29", month = apr, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed May 18 11:18:51 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=127&url=v14/i01&ct=2; http://www.jstatsoft.org/counter.php?id=127&url=v14/i01/v14i01.pdf&ct=1", accepted = "2005-04-19", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2005-04-19", xxtitle = "pinktoe : Semi-automatic Traversal of Trees", } @Article{McMillan:2005:SMB, author = "Garnett McMillan and Timothy Hanson", title = "{SAS} Macro {BDM} for Fitting the {Dale} Regression Model to Bivariate Ordinal Response Data", journal = j-J-STAT-SOFT, volume = "14", number = "2", pages = "1--12", day = "1", month = may, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed May 18 11:18:51 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=127&url=v14/i02&ct=2; http://www.jstatsoft.org/counter.php?id=127&url=v14/i02/v14i02.pdf&ct=1", accepted = "2005-05-01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2005-05-01", xxtitle = "{SAS} Macro {BDM} for Fitting the Dale Regression Model to Bivariate Ordinal Response Data", } @Article{Imai:2005:PMR, author = "Kosuke Imai and David A. {Van Dyk}", title = "\pkg{MNP}: {R} Package for Fitting the {Multinomial Probit Model}", journal = j-J-STAT-SOFT, volume = "14", number = "3", pages = "1--32", day = "8", month = may, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed May 18 11:18:51 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/counter.php?id=128&url=v14/i03&ct=2; http://www.jstatsoft.org/counter.php?id=128&url=v14/i03/v14i03.pdf&ct=1", accepted = "2005-05-08", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2005-05-08", xxtitle = "{MNP} : R Package for Fitting the Multinomial Probit Model", } @Article{Buttrey:2005:CPL, author = "Samuel E. Buttrey", title = "Calling the \pkg{lp\_solve} Linear Program Software from {R}, {S-PLUS} and {Excel}", journal = j-J-STAT-SOFT, volume = "14", number = "4", pages = "1--13", day = "1", month = may, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed May 18 11:18:51 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/counter.php?id=129&url=v14/i04&ct=2; http://www.jstatsoft.org/counter.php?id=129&url=v14/i04/v14i04.pdf&ct=1", accepted = "2005-05-01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", submitted = "2005-05-01", xxtitle = "Calling the lp{\_}solve Linear Program Software from R , S-{PLUS} and Excel", } @Article{Woodward:2005:BBC, author = "Phil Woodward", title = "{BugsXLA}: {Bayes} for the {Common Man}", journal = j-J-STAT-SOFT, volume = "14", number = "5", pages = "1--18", day = "31", month = jan, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed May 18 11:18:51 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/counter.php?id=130&url=v14/i05&ct=2; http://www.jstatsoft.org/counter.php?id=130&url=v14/i05/v14i05.pdf&ct=1", abstract = "The absence of user-friendly software has long been a major obstacle to the routine application of Bayesian methods in business and industry. It will only be through widespread application of the Bayesian approach to real problems that issues, such as the use of prior distributions, can be practically resolved in the same way that the choice of significance levels has been in the classical approach; although most Bayesians would hope for a much more satisfactory resolution. It is only relatively recently that any general purpose Bayesian software has been available; by far the most widely used such package is \pkg{WinBUGS}. Although this software has been designed to enable an extremely wide variety of models to be coded relatively easily, it is unlikely that many will bother to learn the language and its nuances unless they are already highly motivated to try Bayesian methods. This paper describes a graphical user interface, programmed by the author, which facilitates the specification of a wide class of generalised linear mixed models for analysis using WinBUGS. The program, BugsXLA (v2.1), is an Excel Add-In that not only allows the user to specify a model as one would in a package such as SAS or S-PLUS, but also aids the specification of priors and control of the MCMC run itself. Inevitably, developing a program such as this forces one to think again about such issues as choice of default priors, parameterisation and assessing convergence. I have tried to adopt currently perceived good practices, but mainly share my approach so that others can apply it and, through constructive criticism, play a small part in the ultimate development of the first Bayesian software package truly usable by the average data analyst.", accepted = "2005-01-31", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", keywords = "Bayesian analysis; GLMM; graphical user interface; Microsoft Excel; WinBUGS", submitted = "2005-01-31", xxtitle = "{BugsXLA} : Bayes for the Common Man", } @Article{Zeileis:2005:PZS, author = "Achim Zeileis and Gabor Grothendieck", title = "\pkg{zoo}: {S3} Infrastructure for Regular and Irregular Time Series", journal = j-J-STAT-SOFT, volume = "14", number = "6", pages = "1--27", day = "21", month = may, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Dec 12 11:09:58 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=131&url=v14/i06&ct=2; http://www.jstatsoft.org/counter.php?id=131&url=v14/i06/v14i06.pdf&ct=1", abstract = "\pkg{zoo} is an R package providing an S3 class with methods for indexed totally ordered observations, such as discrete irregular time series. Its key design goals are independence of a particular index/time/date class and consistency with base R and the ``\pkg{ts}'' class for regular time series. This paper describes how these are achieved within \pkg{zoo} and provides several illustrations of the available methods for ``\pkg{zoo}'' objects which include plotting, merging and binding, several mathematical operations, extracting and replacing data and index, coercion and NA handling. A subclass ``\pkg{zooreg}'' embeds regular time series into the ``\pkg{zoo}'' framework and thus bridges the gap between regular and irregular time series classes in R.", accepted = "2005-05-21", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", keywords = "irregular time series; R; regular time series; S3; totally ordered observations", submitted = "2005-04-27", xxtitle = "zoo : S3 Infrastructure for Regular and Irregular Time Series", } @Article{Terpstra:2005:RBA, author = "Jeff T. Terpstra and Joseph W. McKean", title = "Rank-Based Analysis of Linear Models Using {R}", journal = j-J-STAT-SOFT, volume = "14", number = "7", pages = "1--26", day = "1", month = jul, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Dec 12 11:09:58 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/counter.php?id=132&url=v14/i07&ct=2; http://www.jstatsoft.org/counter.php?id=132&url=v14/i07/v14i07.pdf&ct=1", abstract = "It is well-known that Wilcoxon procedures out perform least squares procedures when the data deviate from normality and/or contain outliers. These procedures can be generalized by introducing weights; yielding so-called weighted Wilcoxon (WW) techniques. In this paper we demonstrate how WW-estimates can be calculated using an L1 regression routine. More importantly, we present a collection of functions that can be used to implement a robust analysis of a linear model based on WW-estimates. For instance, estimation, tests of linear hypotheses, residual analyses, and diagnostics to detect differences in fits for various weighting schemes are discussed. We analyze a regression model, designed experiment, and autoregressive time series model for the sake of illustration. We have chosen to implement the suite of functions using the R statistical software package. Because R is freely available and runs on multiple platforms, WW-estimation and associated inference is now universally accessible.", accepted = "2005-07-01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", keywords = "estimation; inference; linear models; R functions; rank-based procedures; robust; weighted Wilcoxon estimates", submitted = "2004-04-06", xxtitle = "Rank-Based Analyses of Linear Models Using R", } @Article{Hin:2005:ACD, author = "Lin Yee Hin and Vincent Carey", title = "An Algorithm for Clustered Data Generalized Additive Modelling with {S-PLUS}", journal = j-J-STAT-SOFT, volume = "14", number = "8", pages = "1--24", day = "31", month = aug, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Dec 12 11:09:58 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/counter.php?id=133&url=v14/i08&ct=2; http://www.jstatsoft.org/counter.php?id=133&url=v14/i08/v14i08.pdf&ct=1", abstract = "We present a set of functions in S-PLUS to implement the clustered data generalized additive marginal modelling (CDGAM) strategy proposed by Berhane and Tibshirani (1998). A variety of working correlation structures are supported, and the regression basis may include components from the family of smoothing splines.", accepted = "2005-08-31", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", keywords = "clustered data analysis; generalized estimating equations", submitted = "2005-01-27", xxtitle = "An Algorithm for Clustered Data Generalized Additive Modelling with S-{PLUS}", } @Article{Fox:2005:RCB, author = "John Fox", title = "The {R Commander}: a Basic-Statistics Graphical User Interface to {R}", journal = j-J-STAT-SOFT, volume = "14", number = "9", pages = "1--42", day = "19", month = aug, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Dec 12 11:09:58 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/counter.php?id=134&url=v14/i09&ct=2; http://www.jstatsoft.org/counter.php?id=134&url=v14/i09/v14i09.pdf&ct=1", abstract = "Unlike S-PLUS, R does not incorporate a statistical graphical user interface (GUI), but it does include tools for building GUIs. Based on the \pkg{tcltk} package (which furnishes an interface to the Tcl/Tk GUI toolkit), the \pkg{Rcmdr} package provides a basic-statistics graphical user interface to R called the R Commander. The design objectives of the R Commander were as follows: to support, through an easy-to-use, extensible, crossplatform GUI, the statistical functionality required for a basic-statistics course (though its current functionality has grown to include support for linear and generalized-linear models, and other more advanced features); to make it relatively di cult to do unreasonable things; and to render visible the relationship between choices made in the GUI and the R commands that they generate. The R Commander uses a simple and familiar menu/dialog-box interface. Top-level menus include File, Edit, Data, Statistics, Graphs, Models, Distributions, Tools, and Help, with the complete menu tree given in the paper. Each dialog box includes a Help button, which leads to a relevant help page. Menu and dialog-box selections generate R commands, which are recorded in a script window and are echoed, along with output, to an output window. The script window also provides the ability to edit, enter, and re-execute commands. Error messages, warnings, and some other information appear in a separate messages window. Data sets in the R Commander are simply R data frames, and can be read from attached packages or imported from files. Although several data frames may reside in memory, only one is active at any given time. There may also be an active statistical model (e.g., an R lm or glm object). The purpose of this paper is to introduce and describe the use of the R Commander GUI; to describe the design and development of the R Commander; and to explain how the R Commander GUI can be extended. The second part of the paper (following a brief introduction) can serve as an introductory guide for students who will use the R Commander", accepted = "2005-08-19", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", keywords = "R language; statistical education; statistical GUI; statistical software", submitted = "2004-07-22", xxtitle = "The R Commander: A Basic-Statistics Graphical User Interface to R", } @Article{Karlis:2005:BPD, author = "Dimitris Karlis and Ioannis Ntzoufras", title = "Bivariate {Poisson} and Diagonal Inflated Bivariate {Poisson} Regression Models in {R}", journal = j-J-STAT-SOFT, volume = "14", number = "10", pages = "1--36", day = "5", month = sep, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Dec 12 11:09:58 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/counter.php?id=135&url=v14/i10&ct=2; http://www.jstatsoft.org/counter.php?id=135&url=v14/i10/v14i10.pdf&ct=1", abstract = "In this paper we present an R package called \pkg{bivpois} for maximum likelihood estimation of the parameters of bivariate and diagonal inflated bivariate Poisson regression models. An Expectation-Maximization (EM) algorithm is implemented. Inflated models allow for modelling both over-dispersion (or under-dispersion) and negative correlation and thus they are appropriate for a wide range of applications. Extensions of the algorithms for several other models are also discussed. Detailed guidance and implementation on simulated and real data sets using \pkg{bivpois} package is provided.", accepted = "2005-09-05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", keywords = "bivariate Poisson distribution; EM algorithm; multivariate count data; R functions; zero and diagonal inflated models", submitted = "2003-11-14", xxtitle = "Bivariate Poisson and Diagonal Inflated Bivariate Poisson Regression Models in R", } @Article{Brezger:2005:BAB, author = "Andreas Brezger and Thomas Kneib and Stefan Lang", title = "{BayesX}: Analyzing {Bayesian} Structural Additive Regression Models", journal = j-J-STAT-SOFT, volume = "14", number = "11", pages = "1--22", day = "9", month = sep, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.i11", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Dec 12 11:09:58 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/counter.php?id=136&url=v14/i11&ct=2; http://www.jstatsoft.org/counter.php?id=136&url=v14/i11/v14i11.pdf&ct=1", abstract = "There has been much recent interest in Bayesian inference for generalized additive and related models. The increasing popularity of Bayesian methods for these and other model classes is mainly caused by the introduction of Markov chain Monte Carlo (MCMC) simulation techniques which allow realistic modeling of complex problems. This paper describes the capabilities of the free software package \pkg{BayesX} for estimating regression models with structured additive predictor based on MCMC inference. The program extends the capabilities of existing software for semiparametric regression included in S-PLUS, SAS, R or Stata. Many model classes well known from the literature are special cases of the models supported by BayesX. Examples are generalized additive (mixed) models, dynamic models, varying coefficient models, geoadditive models, geographically weighted regression and models for space-time regression. BayesX supports the most common distributions for the response variable. For univariate responses these are Gaussian, Binomial, Poisson, Gamma, negative Binomial, zero inflated Poisson and zero inflated negative binomial. For multicategorical responses, both multinomial logit and probit models for unordered categories of the response as well as cumulative threshold models for ordered categories can be estimated. Moreover, BayesX allows the estimation of complex continuous time survival and hazard rate models.", accepted = "2005-09-09", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", keywords = "geoadditive models; MCMC; mixed models; space-time regression; structured additive regression", submitted = "2004-06-18", xxtitle = "{BayesX} : Analyzing Bayesian Structured Additive Regression Models", } @Article{Hornik:2005:CCE, author = "Kurt Hornik", title = "A {CLUE} for {CLUster Ensembles}", journal = j-J-STAT-SOFT, volume = "14", number = "12", pages = "1--25", day = "20", month = sep, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.i12", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Dec 12 11:09:58 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=137&url=v14/i12&ct=2; http://www.jstatsoft.org/counter.php?id=137&url=v14/i12/v14i12.pdf&ct=1", abstract = "Cluster ensembles are collections of individual solutions to a given clustering problem which are useful or necessary to consider in a wide range of applications. The R package \pkg{clue} provides an extensible computational environment for creating and analyzing cluster ensembles, with basic data structures for representing partitions and hierarchies, and facilities for computing on these, including methods for measuring proximity and obtaining consensus and secondary clusterings.", accepted = "2005-09-20", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", keywords = "cluster ensembles; cluster proximities; consensus clusterings; hierarchies; partitions; secondary clusterings", submitted = "2005-05-13", xxtitle = "A {CLUE} for {CLUster} Ensembles", } @Article{Marsaglia:2005:MGF, author = "George Marsaglia", title = "Monkeying with the Goodness-of-Fit Test", journal = j-J-STAT-SOFT, volume = "14", number = "13", pages = "1--4", day = "20", month = sep, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.i13", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Dec 12 11:09:58 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=138&url=v14/i13&ct=2; http://www.jstatsoft.org/counter.php?id=138&url=v14/i13/v14i13.pdf&ct=1", abstract = "The familiar $ \sum P(\textrm {OBS} - \textrm {EXP})^2 / \textrm {EXP} $ goodness-of-fit measure is commonly used to test whether an observed sequence came from the realization of $n$ independent identically distributed (iid) discrete random variables. It can be quite effective for testing for identical distribution, but is not suited for assessing independence, as it pays no attention to the order in which output values are received.\par This note reviews a way to adjust or tamper, that is, monkey-with the classical test to make it test for independence as well as identical distribution in short, to test for both the i's in iid, using monkey tests similar to those in the Diehard Battery of Tests of Randomness (Marsaglia 1995).", accepted = "2005-09-20", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", keywords = "$\chi^2$; goodness of fit; monkey tests; overlapping m-tuples", submitted = "2005-05-01", xxtitle = "Monkeying with the Goodness-of-Fit Test", } @Article{Crainiceanu:2005:BAP, author = "Ciprian M. Crainiceanu and David Ruppert and Matthew P. Wand", title = "{Bayesian} Analysis for Penalized Spline Regression Using {WinBUGS}", journal = j-J-STAT-SOFT, volume = "14", number = "14", pages = "1--24", day = "29", month = sep, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.i14", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Dec 12 11:09:58 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=139&url=v14/i14&ct=2; http://www.jstatsoft.org/counter.php?id=139&url=v14/i14/v14i14.pdf&ct=1", abstract = "Penalized splines can be viewed as BLUPs in a mixed model framework, which allows the use of mixed model software for smoothing. Thus, software originally developed for Bayesian analysis of mixed models can be used for penalized spline regression. Bayesian inference for nonparametric models enjoys the flexibility of nonparametric models and the exact inference provided by the Bayesian inferential machinery. This paper provides a simple, yet comprehensive, set of programs for the implementation of nonparametric Bayesian analysis in WinBUGS. Good mixing properties of the MCMC chains are obtained by using low-rank thin-plate splines, while simulation times per iteration are reduced employing WinBUGS specific computational tricks.", accepted = "2005-09-29", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", keywords = "MCMC; semiparametric regression", submitted = "2004-03-18", xxtitle = "Bayesian Analysis for Penalized Spline Regression Using {WinBUGS}", } @Article{Hahsler:2005:PAC, author = "Michael Hahsler and Bettina Gr{\"u}n and Kurt Hornik", title = "\pkg{arules} --- a Computational Environment for Mining Association Rules and Frequent Item Sets", journal = j-J-STAT-SOFT, volume = "14", number = "15", pages = "1--25", day = "29", month = sep, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.i15", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Dec 12 11:09:58 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=140&url=v14/i15&ct=2; http://www.jstatsoft.org/counter.php?id=140&url=v14/i15/v14i15.pdf&ct=1", abstract = "Mining frequent itemsets and association rules is a popular and well researched approach for discovering interesting relationships between variables in large databases. The R package \pkg{arules} presented in this paper provides a basic infrastructure for creating and manipulating input data sets and for analyzing the resulting itemsets and rules. The package also includes interfaces to two fast mining algorithms, the popular C implementations of Apriori and Eclat by Christian Borgelt. These algorithms can be used to mine frequent itemsets, maximal frequent itemsets, closed frequent itemsets and association rules.", accepted = "2005-09-29", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", keywords = "association rules; data mining; frequent itemsets; R.", submitted = "2005-04-15", xxtitle = "arules - A Computational Environment for Mining Association Rules and Frequent Item Sets", } @Article{Hankin:2005:IBR, author = "Robin K. S. Hankin", title = "Introducing {BACCO}, an {R} Bundle for {Bayesian} Analysis of Computer Code Output", journal = j-J-STAT-SOFT, volume = "14", number = "16", pages = "1--21", day = "19", month = oct, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.i16", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Dec 12 11:09:58 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/counter.php?id=141&url=v14/i16&ct=2; http://www.jstatsoft.org/counter.php?id=141&url=v14/i16/v14i16.pdf&ct=1", abstract = "This paper introduces the BACCO bundle of R routines for carrying out Bayesian analysis of computer code output. The bundle comprises packages \pkg{emulator} and \pkg{calibrator}, computerized implementations of the ideas of Oakley and O Hagan (2002) and Kennedy and O Hagan (2001a) respectively. The bundle is self-contained and fully documented R code, and includes a toy dataset that furnishes a working example of the functions.\par Package \pkg{emulator} carries out Bayesian emulation of computer code output; package \pkg{calibrator} allows the incorporation of observational data into model calibration using Bayesian techniques.\par The package is then applied to a dataset taken from climate science.", accepted = "2005-10-19", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", keywords = "Bayesian analysis; climate modelling; uncertainty in climate prediction", submitted = "2005-06-09", xxtitle = "Introducing {BACCO} , an R Bundle for Bayesian Analysis of Computer Code Output", } @Article{Dethlefsen:2005:CPG, author = "Claus Dethlefsen and S{\o}ren H{\o}jsgaard", title = "A Common Platform for Graphical Models in {R}: The {gRbase} Package", journal = j-J-STAT-SOFT, volume = "14", number = "17", pages = "1--12", day = "3", month = dec, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.i17", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Dec 12 11:09:58 2005", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/counter.php?id=142&url=v14/i17&ct=2; http://www.jstatsoft.org/counter.php?id=142&url=v14/i17/v14i17.pdf&ct=1", abstract = "The \pkg{gRbase} package is intended to set the framework for computer packages for data analysis using graphical models. The \pkg{gRbase} package is developed for the open source language, R, and is available for several platforms. The package is intended to be widely extendible and flexible so that package developers may implement further types of graphical models using the available methods.\par The \pkg{gRbase} package consists of a set of S version 3 classes and associated methods for representing data and models. The package is linked to the \pkg{dynamicGraph} package (Badsberg 2005), an interactive graphical user interface for manipulating graphs.\par In this paper, we show how these building blocks can be combined and integrated with inference engines in the special cases of hierarchical log-linear models. We also illustrate how to extend the package to deal with other types of graphical models, in this case the graphical Gaussian models.", accepted = "2005-12-03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", keywords = "", submitted = "2005-08-10", xxtitle = "A Common Platform for Graphical Models in R : The {gRbase} Package", } @Article{Dejean:2005:FRP, author = "S{\'e}bastien D{\'e}jean and Serge Cohen", title = "{FracSim}: An {R} Package to Simulate Multifractional {L{\'e}vy} Motions", journal = j-J-STAT-SOFT, volume = "14", number = "18", pages = "1--19", month = dec, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v014.i18", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v14/i18", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-10-06; Accepted 2005-12-08", xxtitle = "{FracSim} : An R Package to Simulate Multifractional L{\'e}vy Motions", } @Article{Newson:2005:ECJ, author = "Roger Newson", title = "Efficient Calculation of Jackknife Confidence Intervals for Rank Statistics", journal = j-J-STAT-SOFT, volume = "15", number = "1", pages = "1--10", month = dec, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v015.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v15/i01", abstract = "An algorithm is presented for calculating concordance-discordance totals in a time of order $ N \log N $, where $N$ is the number of observations, using a balanced binary search tree. These totals can be used to calculate jackknife estimates and confidence limits in the same time order for a very wide range of rank statistics, including Kendall's $ \tau $, Somers' $D$, Harrell's $c$, the area under the receiver operating characteristic (ROC) curve, the Gini coefficient, and the parameters underlying the sign and rank-sum tests. A Stata package is introduced for calculating confidence intervals for these rank statistics using this algorithm, which has been implemented in the Mata compilable matrix programming language supplied with Stata", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-08-24; Accepted 2005-12-16", xxtitle = "Efficient Calculation of Jackknife Confidence Intervals for Rank Statistics", xxyear = "2006", } @Article{Smith:2005:JES, author = "Christina D. Smith and Jeffrey S. Pontius", title = "Jackknife Estimator of Species Richness with {S-PLUS}", journal = j-J-STAT-SOFT, volume = "15", number = "3", pages = "1--12", month = dec, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v015.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v15/i03", abstract = "An estimate of the number of species, $S$, usually called species richness by ecologists, in an area is one of the basic statistics used to ascertain biological diversity. Traditionally ecologists have used the number of species observed in a sample, $ S_0$, to estimate $S$, realizing that $ S_0$ is a lower bound for $S$. One alternative to $ S_0$ is to use a nonparametric procedure such as jackknife resampling. For species richness, a closed form of the jackknife estimator is available. Typically statistical software contains only the traditional iterative form of the jackknife estimator. The purpose of this article is to propose an S-PLUS function for calculating the noniterative first order jackknife estimator of species richness and some associated plots and statistics.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2004-09-30; Accepted 2005-12-05", xxtitle = "Jackknife Estimator of Species Richness with S-{PLUS}", xxyear = "2006", } @Article{Stoll:2005:WRS, author = "Heather Stoll and Gary King and Langche Zeng", title = "{WhatIf}: {R} Software for Evaluating Counterfactuals", journal = j-J-STAT-SOFT, volume = "15", number = "4", pages = "1--18", month = dec, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v015.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v15/i04", abstract = "WhatIf is an R package that implements the methods for evaluating counterfactuals introduced in King and Zeng (2006a) and King and Zeng (2006b). It offers easy-to-use techniques for assessing a counterfactual's model dependence without having to conduct sensitivity testing over specified classes of models. These same methods can be used to approximate the common support of the treatment and control groups in causal inference.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-11-09; Accepted 2005-12-10", xxtitle = "{WhatIf} : R Software for Evaluating Counterfactuals", xxyear = "2006", } @Article{Knoke:2005:ARM, author = "James D. Knoke and Christy M. Anderson and Gary G. Koch", title = "Analyzing Repeated Measures Marginal Models on Sample Surveys with Resampling Methods", journal = j-J-STAT-SOFT, volume = "15", number = "8", pages = "1--13", month = dec, year = "2005", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v015.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v15/i08", abstract = "Packaged statistical software for analyzing categorical, repeated measures marginal models on sample survey data with binary covariates does not appear to be available. Consequently, this report describes a customized SAS program which accomplishes such an analysis on survey data with jackknifed replicate weights for which the primary sampling unit information has been suppressed for respondent confidentiality. First, the program employs the Macro Language and the Output Delivery System (ODS) to estimate the means and covariances of indicator variables for the response variables, taking the design into account. Then, it uses PROC CATMOD and ODS, ignoring the survey design, to obtain the design matrix and hypothesis test specifications. Finally, it enters these results into another run of CATMOD, which performs automated direct input of the survey design specifications and accomplishes the appropriate analysis. This customized SAS program can be employed, with minor editing, to analyze general categorical, repeated measures marginal models on sample surveys with replicate weights. Finally, the results of our analysis accounting for the survey design are compared to the results of two alternate analyses of the same data. This comparison confirms that such alternate analyses, which do not properly account for the design, do not produce useful results.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-09-12; Accepted 2005-12-14", xxtitle = "Analyzing Repeated Measures Marginal Models on Sample Surveys with Resampling Methods", xxyear = "2006", } @Article{Halekoh:2006:RPP, author = "Ulrich Halekoh and S{\o}ren H{\o}jsgaard and Jun Yan", title = "The {R} Package \pkg{geepack} for Generalized Estimating Equations", journal = j-J-STAT-SOFT, volume = "15", number = "2", pages = "1--11", month = jan, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v015.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v15/i02", abstract = "This paper describes the core features of the R package \pkg{geepack}, which implements the generalized estimating equations (GEE) approach for fitting marginal generalized linear models to clustered data. Clustered data arise in many applications such as longitudinal data and repeated measures. The GEE approach focuses on models for the mean of the correlated observations within clusters without fully specifying the joint distribution of the observations. It has been widely used in statistical practice. This paper illustrates the application of the GEE approach with \pkg{geepack} through an example of clustered binary data.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-06-17; Accepted 2005-12-22", } @Article{Tanimura:2006:PSM, author = "Susumu Tanimura and Chusi Kuroiwa and Tsutomu Mizota", title = "Proportional Symbol Mapping in {R}", journal = j-J-STAT-SOFT, volume = "15", number = "5", pages = "1--7", month = jan, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v015.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v15/i05", abstract = "Visualization of spatial data on a map aids not only in data exploration but also in communication to impart spatial conception or ideas to others. Although recent cartographic functions in R are rapidly becoming richer, proportional symbol mapping, which is one of the common mapping approaches, has not been packaged thus far. Based on the theories of proportional symbol mapping developed in cartography, the authors developed some functions for proportional symbol mapping using R, including mathematical and perceptual scaling. An example of these functions demonstrated the new expressive power and options available in R, particularly for the visualization of conceptual point data.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-10-02; Accepted 2006-01-24", xxtitle = "Proportional Symbol Mapping in R", } @Article{Marchetti:2006:IIG, author = "Giovanni M. Marchetti", title = "Independencies Induced from a Graphical {Markov} Model After Marginalization and Conditioning: The {R} Package \pkg{ggm}", journal = j-J-STAT-SOFT, volume = "15", number = "6", pages = "1--15", month = feb, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v015.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v15/i06", abstract = "We describe some functions in the R package \pkg{ggm} to derive from a given Markov model, represented by a directed acyclic graph, different types of graphs induced after marginalizing over and conditioning on some of the variables. The package has a few basic functions that find the essential graph, the induced concentration and covariance graphs, and several types of chain graphs implied by the directed acyclic graph (DAG) after grouping and reordering the variables. These functions can be useful to explore the impact of latent variables or of selection effects on a chosen data generating model.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-06-21; Accepted 2006-02-08", xxtitle = "Independencies Induced from a Graphical Markov Model after Marginalization and Conditioning: The R Package ggm", } @Article{Hankin:2006:IPE, author = "Robin K. S. Hankin", title = "Introducing \pkg{elliptic}, an {R} Package for Elliptic and Modular Functions", journal = j-J-STAT-SOFT, volume = "15", number = "7", pages = "1--22", month = jan, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v015.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v15/i07", abstract = "This paper introduces the \pkg{elliptic} package of R routines, for numerical calculation of elliptic and related functions. Elliptic functions furnish interesting and instructive examples of many ideas of complex analysis, and the package illustrates these numerically and visually. A statistical application in fluid mechanics is presented.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-07-13; Accepted 2006-01-18", xxtitle = "Introducing elliptic , an R Package for Elliptic and Modular Functions", } @Article{Karatzoglou:2006:SVM, author = "Alexandros Karatzoglou and David Meyer and Kurt Hornik", title = "Support Vector Machines in {R}", journal = j-J-STAT-SOFT, volume = "15", number = "9", pages = "1--28", month = apr, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v015.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v15/i09", abstract = "Being among the most popular and efficient classification and regression methods currently available, implementations of support vector machines exist in almost every popular programming language. Currently four R packages contain SVM related software. The purpose of this paper is to present and compare these implementations.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-10-24; Accepted 2006-04-06", xxtitle = "Support Vector Machines in R", } @Article{Kim:2006:CRP, author = "Donghoh Kim and Hee-Seok Oh", title = "{CVTresh}: {R} Package for Level-Dependent Cross-Validation Thresholding", journal = j-J-STAT-SOFT, volume = "15", number = "10", pages = "1--13", month = apr, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v015.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v15/i10", abstract = "The core of the wavelet approach to nonparametric regression is thresholding of wavelet coefficients. This paper reviews a cross-validation method for the selection of the thresholding value in wavelet shrinkage of Oh, Kim, and Lee (2006), and introduces the R package CVThresh implementing details of the calculations for the procedures.\par This procedure is implemented by coupling a conventional cross-validation with a fast imputation method, so that it overcomes a limitation of data length, a power of 2. It can be easily applied to the classical leave-one-out cross-validation and K-fold cross-validation. Since the procedure is computationally fast, a level-dependent cross-validation can be developed for wavelet shrinkage of data with various sparseness according to levels.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-08-22; Accepted 2006-04-08", xxtitle = "{CVThresh} : R Package for Level-Dependent Cross-Validation Thresholding", } @Article{Elam:2006:CPC, author = "Matthew E. Elam and Kenneth E. Case", title = "A Computer Program to Calculate Two-Stage Short-Run Control Chart Factors for ({X, MR}) Charts", journal = j-J-STAT-SOFT, volume = "15", number = "11", pages = "1--13", month = apr, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v015.i11", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v15/i11", abstract = "This paper is the second in a series of two papers that fully develops two-stage short-run (X, MR) control charts. This paper describes the development and execution of a computer program that accurately calculates first- and second-stage short-run control chart factors for (X, MR) charts using the equations derived in the first paper. The software used is Mathcad. The program accepts values for number of subgroups, $ \alpha $ for the X chart, and $ \alpha $ for the MR chart both above the upper control limit and below the lower control limit. Tables are generated for specific values of these inputs and the implications of the results are discussed. A numerical example illustrates the use of the program.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-10-19; Accepted 2005-04-13", xxtitle = "A Computer Program to Calculate Two-Stage Short-Run Control Chart Factors for ( X , {MR} ) Charts", } @Article{Dastidar:2006:GSP, author = "Surajit Ghosh Dastidar", title = "{Gompertz}: a {Scilab} Program for Estimating {Gompertz} Curve Using {Gauss--Newton} Method of Least Squares", journal = j-J-STAT-SOFT, volume = "15", number = "12", pages = "1--12", month = apr, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v015.i12", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v15/i12", abstract = "A computer program for estimating Gompertz curve using Gauss0-Newton method of least squares is described in detail. It is based on the estimation technique proposed in Reddy (1985). The program is developed using Scilab (version 3.1.1), a freely available scientific software package that can be downloaded from \path=http://www.scilab.org/=. Data is to be fed into the program from an external disk file which should be in Microsoft Excel format. The output will contain sample size, tolerance limit, a list of initial as well as the final estimate of the parameters, standard errors, value of Gauss-Normal equations namely $ G N_1 $, $ G N_2 $, and $ G N_3 $, No. of iterations, variance ($ \sigma^2$), Durbin-Watson statistic, goodness of fit measures such as $ R^2$, $D$ value, covariance matrix and residuals. It also displays a graphical output of the estimated curve vis a vis the observed curve. It is an improved version of the program proposed in Dastidar (2005).", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-08-29; Accepted 2006-04-13", xxtitle = "Gompertz : A Scilab Program for Estimating Gompertz Curve Using Gauss-Newton Method of Least Squares", } @Article{Xu:2006:BRD, author = "Hongquan Xu", title = "Book Review: {{\booktitle{Discovering Knowledge in Data: An Introduction to Data Mining}}}", journal = j-J-STAT-SOFT, volume = "16", number = "BR-1", pages = "1--2", month = may, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v016.b01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v16/b01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-05-22; Accepted 2006-05-22", } @Article{deLeeuw:2006:BRB, author = "Jan de Leeuw", title = "Book Review: {{\booktitle{Robust Statistical Methods with R}}}", journal = j-J-STAT-SOFT, volume = "16", number = "BR-2", pages = "1--2", month = jul, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v016.b02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v16/b02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-07-07; Accepted 2006-07-07", } @Article{Maindonald:2006:BRB, author = "John Maindonald", title = "Book Review: {{\booktitle{Generalized Additive Models: An Introduction with R}}}", journal = j-J-STAT-SOFT, volume = "16", number = "BR-3", pages = "1--2", month = jul, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v016.b03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v16/b03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-07-12; Accepted 2006-07-12", } @Article{Sanchez:2006:BRB, author = "Juana Sanchez", title = "Book Review: {{\booktitle{Handbook of Univariate and Multivariate Data Analysis and Interpretation with SPSS}}}", journal = j-J-STAT-SOFT, volume = "16", number = "BR-4", pages = "1--3", month = jul, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v016.b04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v16/b04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-07-19; Accepted 2006-07-19", } @Article{Sparapani:2006:BRB, author = "Rodney Sparapani", title = "Book Review: {{\booktitle{Statistical Analysis of Medical Data Using SAS}}}", journal = j-J-STAT-SOFT, volume = "16", number = "BR-5", pages = "1--5", month = jul, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v016.b05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v16/b05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-07-26; Accepted 2006-07-26", } @Article{Hilbe:2006:BRB, author = "Joseph Hilbe", title = "Book Review: {{\booktitle{A Handbook of Statistical Analyses Using R}}}", journal = j-J-STAT-SOFT, volume = "16", number = "BR-6", pages = "1--6", month = aug, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v016.b06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v16/b06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-08-12; Accepted 2006-08-12", } @Article{Bullard:2006:BRB, author = "James Bullard", title = "Book Review: {{\booktitle{R Graphics}}}", journal = j-J-STAT-SOFT, volume = "16", number = "BR-7", pages = "1--3", month = oct, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v016.b07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v16/b07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-10-11; Accepted 2006-10-11", } @Article{Hankin:2006:CSA, author = "Robin K. S. Hankin", title = "Code Snippet: Additive Integer Partitions in {R}", journal = j-J-STAT-SOFT, volume = "16", number = "CS-1", pages = "1--3", month = may, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v016.c01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v16/c01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-04-27; Accepted 2006-05-17", } @Article{Nadarajah:2006:CSR, author = "Saralees Nadarajah and Samuel Kotz", title = "Code Snippet: {R} Programs for Truncated Distributions", journal = j-J-STAT-SOFT, volume = "16", number = "CS-2", pages = "1--8", month = aug, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v016.c02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v16/c02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-06-06; Accepted 2006-08-17", } @Article{Shin:2006:CSL, author = "Ji-Hyung Shin and Sigal Blay and Brad McNeney and Jinko Graham", title = "Code Snippet: {LDheatmap}: An {R} Function for Graphical Display of Pairwise Linkage Disequilibria Between Single Nucleotide Polymorphisms", journal = j-J-STAT-SOFT, volume = "16", number = "CS-3", pages = "1--9", month = sep, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v016.c03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v16/c03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-05-15; Accepted 2006-09-20", } @Article{Dethlefsen:2006:FSS, author = "Claus Dethlefsen and S{\o}ren Lundbye-Christensen", title = "Formulating State Space Models in {R} with Focus on Longitudinal Regression Models", journal = j-J-STAT-SOFT, volume = "16", number = "1", pages = "1--15", month = apr, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v016.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v16/i01", abstract = "We provide a language for formulating a range of state space models with response densities within the exponential family. The described methodology is implemented in the R-package sspir. A state space model is specified similarly to a generalized linear model in R, and then the time-varying terms are marked in the formula. Special functions for specifying polynomial time trends, harmonic seasonal patterns, unstructured seasonal patterns and time-varying covariates can be used in the formula. The model is fitted to data using iterated extended Kalman filtering, but the formulation of models does not depend on the implemented method of inference. The package is demonstrated on three datasets.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-05-25; Accepted 2006-04-26", xxtitle = "Formulating State Space Models in R with Focus on Longitudinal Regression Models", } @Article{Burkett:2006:HSL, author = "Kelly Burkett and Jinko Graham and Brad McNeney", title = "\pkg{hapassoc}: Software for Likelihood Inference of Trait Associations with {SNP} Haplotypes and Other Attributes", journal = j-J-STAT-SOFT, volume = "16", number = "2", pages = "1--19", month = apr, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v016.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v16/i02", abstract = "Complex medical disorders, such as heart disease and diabetes, are thought to involve a number of genes which act in conjunction with lifestyle and environmental factors to increase disease susceptibility. Associations between complex traits and single nucleotide polymorphisms (SNPs) in candidate genomic regions can provide a useful tool for identifying genetic risk factors. However, analysis of trait associations with single SNPs ignores the potential for extra information from haplotypes, combinations of variants at multiple SNPs along a chromosome inherited from a parent. When haplotype-trait associations are of interest and haplotypes of individuals can be determined, generalized linear models (GLMs) may be used to investigate haplotype associations while adjusting for the effects of non-genetic cofactors or attributes. Unfortunately, haplotypes cannot always be determined cost-effectively when data is collected on unrelated subjects. Uncertain haplotypes may be inferred on the basis of data from single SNPs. However, subsequent analyses of risk factors must account for the resulting uncertainty in haplotype assignment in order to avoid potential errors in interpretation. To account for such uncertainty, we have developed \pkg{hapassoc}, software for R implementing a likelihood approach to inference of haplotype and non-genetic effects in GLMs of trait associations. We provide a description of the underlying statistical method and illustrate the use of \pkg{hapassoc} with examples that highlight the flexibility to specify dominant and recessive effects of genetic risk factors, a feature not shared by other software that restricts users to additive effects only. Additionally, \pkg{hapassoc} can accommodate missing SNP genotypes for limited numbers of subjects.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-10-20; Accepted 2006-04-26", xxtitle = "hapassoc : Software for Likelihood Inference of Trait Associations with {SNP} Haplotypes and Other Attributes", } @Article{McBane:2006:PCD, author = "George C. McBane", title = "Programs to Compute Distribution Functions and Critical Values for Extreme Value Ratios for Outlier Detection", journal = j-J-STAT-SOFT, volume = "16", number = "3", pages = "1--9", month = may, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v016.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v16/i03", abstract = "A set of FORTRAN subprograms is presented to compute density and cumulative distribution functions and critical values for the range ratio statistics of Dixon (1951, The Annals of Mathematical Statistics ) These statistics are useful for detection of outliers in small samples.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-01-09; Accepted 2006-05-04", xxtitle = "Programs to Compute Distribution Functions and Critical Values for Extreme Value Ratios for Outlier Detection", } @Article{Marsaglia:2006:RNV, author = "George Marsaglia", title = "Ratios of Normal Variables", journal = j-J-STAT-SOFT, volume = "16", number = "4", pages = "1--10", month = may, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v016.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v16/i04", abstract = "This article extends and amplifies on results from a paper of over forty years ago. It provides software for evaluating the density and distribution functions of the ratio $ z / w $ for any two jointly normal variates $z$, $w$, and provides details on methods for transforming a general ratio $ z / w$ into a standard form, $ (a + x) / (b + y)$, with $x$ and $y$ independent standard normal and $a$, $b$ non-negative constants. It discusses handling general ratios when, in theory, none of the moments exist yet practical considerations suggest there should be approximations whose adequacy can be verified by means of the included software. These approximations show that many of the ratios of normal variates encountered in practice can themselves be taken as normally distributed. A practical rule is developed: If $ a < 2.256$ and $ 4 < b$ then the ratio $ (a + x) / (b + y)$ is itself approximately normally distributed with mean $ \mu = a / (1.01 b - 0.2713)$ and variance $ \sigma^2 = (a^2 + 1) / (b^2 + 0.108 b - 3.795) \mu^2$.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-03-07; Accepted 2006-05-11", xxtitle = "Ratios of Normal Variables", } @Article{Nevalainen:2006:SIM, author = "Jaakko Nevalainen and Hannu Oja", title = "{SAS\slash IML} Macros for a Multivariate Analysis of Variance Based on Spatial Signs", journal = j-J-STAT-SOFT, volume = "16", number = "5", pages = "1--17", month = may, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v016.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v16/i05", abstract = "Recently, new nonparametric multivariate extensions of the univariate sign methods have been proposed. Randles (2000) introduced an affine invariant multivariate sign test for the multivariate location problem. Later on, Hettmansperger and Randles (2002) considered an affine equivariant multivariate median corresponding to this test. The new methods have promising efficiency and robustness properties. In this paper, we review these developments and compare them with the classical multivariate analysis of variance model. A new SAS/IML tool for performing a spatial sign based multivariate analysis of variance is introduced.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2004-11-23; Accepted 2006-05-17", xxtitle = "{SAS}/{IML} Macros for a Multivariate Analysis of Variance Based on Spatial Signs", } @Article{Husing:2006:ARA, author = "Johannes H{\"u}sing", title = "An Accept-and-Reject Algorithm to Sample from a Set of Permutations Restricted by a Time Constraint", journal = j-J-STAT-SOFT, volume = "16", number = "6", pages = "1--17", month = may, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v016.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v16/i06", abstract = "A modification of an accept-and-reject algorithm to sample from a set of restricted permutations is proposed. By concentrating on a special class of matrices obtained by restriction of the permutation in time, assuming the objects to be permuted to be events in time, the modified algorithm's running time can be shown to be linear instead of geometric in the number of elements. The implementation of the algorithm in the language R is presented in a Literate Programming style.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-04-11; Accepted 2006-05-16", xxtitle = "An Accept-and-Reject Algorithm to Sample from a Set of Permutations Restricted by a Time Constraint", } @Article{Moon:2006:CTT, author = "Hojin Moon and Hongshik Ahn and Ralph L. Kodell", title = "A Computational Tool for Testing Dose-related Trend Using an Age-adjusted Bootstrap-based Poly-$k$ Test", journal = j-J-STAT-SOFT, volume = "16", number = "7", pages = "1--14", month = aug, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v016.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v16/i07", abstract = "A computational tool for testing for a dose-related trend and/or a pairwise difference in the incidence of an occult tumor via an age-adjusted bootstrap-based poly-k test and the original poly-k test is presented in this paper. The poly-k test (Bailer and Portier 1988) is a survival-adjusted Cochran-Armitage test, which achieves robustness to effects of differential mortality across dose groups. The original poly-k test is asymptotically standard normal under the null hypothesis. However, the asymptotic normality is not valid if there is a deviation from the tumor onset distribution that is assumed in this test. Our age-adjusted bootstrap-based poly-k test assesses the significance of assumed asymptotic normal tests and investigates an empirical distribution of the original poly-k test statistic using an age-adjusted bootstrap method. A tumor of interest is an occult tumor for which the time to onset is not directly observable. Since most of the animal carcinogenicity studies are designed with a single terminal sacrifice, the present tool is applicable to rodent tumorigenicity assays that have a single terminal sacrifice. The present tool takes input information simply from a user screen and reports testing results back to the screen through a user-interface. The computational tool is implemented in C/C++ and is applied to analyze a real data set as an example. Our tool enables the FDA and the pharmaceutical industry to implement a statistical analysis of tumorigenicity data from animal bioassays via our age-adjusted bootstrap-based poly-k test and the original poly-k test which has been adopted by the National Toxicology Program as its standard statistical test.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2004-11-16; Accepted 2006-08-04", } @Article{Monahan:2006:SAC, author = "John F. Monahan", title = "Some Algorithms for the Conditional Mean Vector and Covariance Matrix", journal = j-J-STAT-SOFT, volume = "16", number = "8", pages = "1--9", month = aug, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v016.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v16/i08", abstract = "We consider here the problem of computing the mean vector and covariance matrix for a conditional normal distribution, considering especially a sequence of problems where the conditioning variables are changing. The sweep operator provides one simple general approach that is easy to implement and update. A second, more goal-oriented general method avoids explicit computation of the vector and matrix, while enabling easy evaluation of the conditional density for likelihood computation or easy generation from the conditional distribution. The covariance structure that arises from the special case of an ARMA(p, q) time series can be exploited for substantial improvements in computational efficiency.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-10-01; Accepted 2006-08-24", xxtitle = "Some Algorithms for the Conditional Mean Vector and Covariance Matrix", } @Article{Zeileis:2006:OOC, author = "Achim Zeileis", title = "Object-oriented Computation of Sandwich Estimators", journal = j-J-STAT-SOFT, volume = "16", number = "9", pages = "1--16", month = aug, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v016.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v16/i09", abstract = "Sandwich covariance matrix estimators are a popular tool in applied regression modeling for performing inference that is robust to certain types of model misspecification. Suitable implementations are available in the R system for statistical computing for certain model fitting functions only (in particular {\tt lm()}), but not for other standard regression functions, such as {\tt glm()}, {\tt nls()}, or {\tt survreg()}. Therefore, conceptual tools and their translation to computational tools in the package sandwich are discussed, enabling the computation of sandwich estimators in general parametric models. Object orientation can be achieved by providing a few extractor functions' most importantly for the empirical estimating functions' from which various types of sandwich estimators can be computed.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-05-26; Accepted 2006-08-15", xxtitle = "Object-Oriented Computation of Sandwich Estimators", } @Article{Schrepp:2006:IPC, author = "Martin Schrepp", title = "{ITA 2.0}: a Program for Classical and Inductive Item Tree Analysis", journal = j-J-STAT-SOFT, volume = "16", number = "10", pages = "1--14", month = sep, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v016.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v16/i10", abstract = "Item Tree Analysis (ITA) is an explorative method of data analysis which can be used to establish a hierarchical structure on a set of dichotomous items from a questionnaire or test. There are currently two different algorithms available to perform an ITA. We describe a computer program called ITA 2.0 which implements both of these algorithms. In addition we show with a concrete data set how the program can be used for the analysis of questionnaire data.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-12-14; Accepted 2006-09-06", xxtitle = "{ITA} 2.0: A Program for Classical and Inductive Item Tree Analysis", } @Article{Dinov:2006:SSO, author = "Ivo D. Dinov", title = "{SOCR}: Statistics Online Computational Resource", journal = j-J-STAT-SOFT, volume = "16", number = "11", pages = "1--16", month = oct, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v016.i11", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v16/i11", abstract = "The need for hands-on computer laboratory experience in undergraduate and graduate statistics education has been firmly established in the past decade. As a result a number of attempts have been undertaken to develop novel approaches for problem-driven statistical thinking, data analysis and result interpretation. In this paper we describe an integrated educational web-based framework for: interactive distribution modeling, virtual online probability experimentation, statistical data analysis, visualization and integration. Following years of experience in statistical teaching at all college levels using established licensed statistical software packages, like STATA, S-PLUS, R, SPSS, SAS, Systat, etc., we have attempted to engineer a new statistics education environment, the Statistics Online Computational Resource (SOCR). This resource performs many of the standard types of statistical analysis, much like other classical tools. In addition, it is designed in a plug-in object-oriented architecture and is completely platform independent, web-based, interactive, extensible and secure. Over the past 4 years we have tested, fine-tuned and reanalyzed the SOCR framework in many of our undergraduate and graduate probability and statistics courses and have evidence that SOCR resources build student's intuition and enhance their learning.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-07-01; Accepted 2006-10-01", xxtitle = "{SOCR} : Statistics Online Computational Resource", } @Article{Murrell:2006:BRB, author = "Paul Murrell", title = "Book Review: {{\booktitle{Graphics of Large Datasets: Visualizing a Million}}}", journal = j-J-STAT-SOFT, volume = "17", number = "BR-1", pages = "1--3", month = dec, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v017.b01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v17/b01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-12-05; Accepted 2006-12-05", } @Article{Gentleman:2006:BRB, author = "Robert Gentleman", title = "Book Review: {{\booktitle{Developing Statistical Software in FORTRAN 95}}}", journal = j-J-STAT-SOFT, volume = "17", number = "BR-2", pages = "1--2", month = dec, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v017.b02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v17/b02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-12-05; Accepted 2006-12-05", } @Article{Karlsson:2006:SRS, author = "Andreas Karlsson", title = "Software Review: {{\em Scientific Workplace 5.5 and LyX 1.4.2}}", journal = j-J-STAT-SOFT, volume = "17", number = "SR-1", pages = "1--11", month = oct, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v017.s01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v17/s01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-10-27; Accepted 2006-10-27", } @Article{Gromping:2006:RIL, author = "Ulrike Gr{\"o}mping", title = "Relative Importance for Linear Regression in {R}: The Package \pkg{relaimpo}", journal = j-J-STAT-SOFT, volume = "17", number = "1", pages = "1--27", month = sep, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v017.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v17/i01", abstract = "Relative importance is a topic that has seen a lot of interest in recent years, particularly in applied work. The R package \pkg{relaimpo} implements six different metrics for assessing relative importance of regressors in the linear model, two of which are recommended - averaging over orderings of regressors and a newly proposed metric (Feldman 2005) called pmvd. Apart from delivering the metrics themselves, \pkg{relaimpo} also provides (exploratory) bootstrap confidence intervals. This paper offers a brief tutorial introduction to the package. The methods and \pkg{relaimpo}'s functionality are illustrated using the data set swiss that is generally available in R. The paper targets readers who have a basic understanding of multiple linear regression. For the background of more advanced aspects, references are provided.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-01-03; Accepted 2006-09-01", xxtitle = "Relative Importance for Linear Regression in R : The Package relaimpo", } @Article{Culp:2006:ARP, author = "Mark Culp and Kjell Johnson and George Michailidis", title = "\pkg{ada}: An {R} Package for Stochastic Boosting", journal = j-J-STAT-SOFT, volume = "17", number = "2", pages = "1--27", month = sep, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v017.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v17/i02", abstract = "Boosting is an iterative algorithm that combines simple classification rules with ``mediocre'' performance in terms of misclassification error rate to produce a highly accurate classification rule. Stochastic gradient boosting provides an enhancement which incorporates a random mechanism at each boosting step showing an improvement in performance and speed in generating the ensemble. \pkg{ada} is an R package that implements three popular variants of boosting, together with a version of stochastic gradient boosting. In addition, useful plots for data analytic purposes are provided along with an extension to the multi-class case. The algorithms are illustrated with synthetic and real data sets.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-07-13; Accepted 2007-07-13", } @Article{Meyer:2006:SFV, author = "David Meyer and Achim Zeileis and Kurt Hornik", title = "The {Strucplot} Framework: Visualizing Multi-way Contingency Tables with \pkg{vcd}", journal = j-J-STAT-SOFT, volume = "17", number = "3", pages = "1--48", month = oct, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v017.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v17/i03", abstract = "This paper describes the ``strucplot'' framework for the visualization of multi-way contingency tables. Strucplot displays include hierarchical conditional plots such as mosaic, association, and sieve plots, and can be combined into more complex, specialized plots for visualizing conditional independence, GLMs, and the results of independence tests. The framework's modular design allows flexible customization of the plots' graphical appearance, including shading, labeling, spacing, and legend, by means of ``graphical appearance control'' functions. The framework is provided by the R package \pkg{vcd}.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-11-02; Accepted 2006-10-19", xxtitle = "The Strucplot Framework: Visualizing Multi-way Contingency Tables with vcd", } @Article{Mineo:2006:URP, author = "Angelo M. Mineo and Alfredo Pontillo", title = "Using {R} via {PHP} for Teaching Purposes: {R-php}", journal = j-J-STAT-SOFT, volume = "17", number = "4", pages = "1--20", month = oct, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v017.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v17/i04", abstract = "This paper deals with the R-php statistical software, that is an environment for statistical analysis, freely accessible and attainable through the World Wide Web, based on R. Indeed, this software uses, as ``engine'' for statistical analyses, R via PHP and its design has been inspired by a paper of de Leeuw (1997). R-php is based on two modules: a base module and a point-and-click module. R-php base allows the simple editing of R code in a form. R-php point-and-click allows some statistical analyses by means of a graphical user interface (GUI): then, to use this module it is not necessary for the user to know the R environment, but all the allowed analyses can be performed by using the computer mouse. We think that this tool could be particularly useful for teaching purposes: one possible use could be in a University computer laboratory to permit a smooth approach of students to R.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2004-09-04; Accepted 2006-10-20", xxtitle = "Using R via {PHP} for Teaching Purposes: R-php", } @Article{Rizopoulos:2006:LRP, author = "Dimitris Rizopoulos", title = "\pkg{ltm}: An {R} Package for Latent Variable Modeling and Item Response Analysis", journal = j-J-STAT-SOFT, volume = "17", number = "5", pages = "1--25", month = nov, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v017.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v17/i05", abstract = "The R package \pkg{ltm} has been developed for the analysis of multivariate dichotomous and polytomous data using latent variable models, under the Item Response Theory approach. For dichotomous data the Rasch, the Two-Parameter Logistic, and Birnbaum's Three-Parameter models have been implemented, whereas for polytomous data Semejima's Graded Response model is available. Parameter estimates are obtained under marginal maximum likelihood using the Gauss-Hermite quadrature rule. The capabilities and features of the package are illustrated using two real data examples.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-05-08; Accepted 2006-11-20", xxtitle = "ltm : An R Package for Latent Variable Modeling and Item Response Theory Analyses", } @Article{Friendly:2006:DEP, author = "Michael Friendly", title = "Data Ellipses, {HE} Plots and Reduced-Rank Displays for Multivariate Linear Models: {SAS} Software and Examples", journal = j-J-STAT-SOFT, volume = "17", number = "6", pages = "1--43", month = nov, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v017.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v17/i06", abstract = "This paper describes graphical methods for multiple-response data within the framework of the multivariate linear model (MLM), aimed at understanding what is being tested in a multivariate test, and how factor/predictor effects are expressed across multiple response measures. In particular, we describe and illustrate a collection of SAS macro programs for: (a) Data ellipses and low-rank biplots for multivariate data, (b) HE plots, showing the hypothesis and error covariance matrices for a given pair of responses, and a given effect, (c) HE plot matrices, showing all pairwise HE plots, and (d) low-rank analogs of HE plots, showing all observations, group means, and their relations to the response variables.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-10-11; Accepted 2006-11-10", xxtitle = "Data Ellipses, {HE} Plots and Reduced-Rank Displays for Multivariate Linear Models: {SAS} Software and Examples", } @Article{Caffo:2006:EHT, author = "Brian Caffo", title = "Exact Hypothesis Tests for Log-linear Models with {exactLoglinTest}", journal = j-J-STAT-SOFT, volume = "17", number = "7", pages = "1--17", month = nov, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v017.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v17/i07", abstract = "This manuscript overviews exact testing of goodness of fit for log-linear models using the R package exactLoglinTest. This package evaluates model fit for Poisson log-linear models by conditioning on minimal sufficient statistics to remove nuisance parameters. A Monte Carlo algorithm is proposed to estimate P values from the resulting conditional distribution. In particular, this package implements a sequentially rounded normal approximation and importance sampling to approximate probabilities from the conditional distribution. Usually, this results in a high percentage of valid samples. However, in instances where this is not the case, a Metropolis Hastings algorithm can be implemented that makes more localized jumps within the reference set. The manuscript details how some conditional tests for binomial logit models can also be viewed as conditional Poisson log-linear models and hence can be performed via exactLoglinTest. A diverse battery of examples is considered to highlight use, features and extensions of the software. Notably, potential extensions to evaluating disclosure risk are also considered.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-02-07; Accepted 2006-11-10", xxtitle = "Exact Hypothesis Tests for Log-linear Models with {exactLoglinTest}", } @Article{Xiao:2007:CPC, author = "Yuanhui Xiao and Alexander Gordon and Andrei Yakovlev", title = "A {C++} Program for the {Cram{\'e}r--Von Mises} Two-Sample Test", journal = j-J-STAT-SOFT, volume = "17", number = "8", pages = "1--15", month = dec, year = "2006", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v017.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v17/i08", abstract = "As larger sets of high-throughput data in genomics and proteomics become more readily available, there is a growing need for fast algorithms designed to compute exact p values of distribution-free statistical tests. We present a program for computing the exact distribution of the two-sample Cram{\'e}r-von Mises test statistic under the null hypothesis that the two samples are drawn from the same continuous distribution. The program makes it possible to handle substantially larger sample sizes than earlier proposed computational tools. The C++ source code for the program is published with this paper, and an R package is under development.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-03-17; Accepted 2006-12-18", xxtitle = "A C$\mathplus\mathplus$ Program for the Cram{\'e}r-von Mises Two-Sample Test", xxyear = "2007", } @Article{Cox:2007:BRB, author = "Nicholas Cox", title = "Book Review: {{\booktitle{The Grammar of Graphics}}}", journal = j-J-STAT-SOFT, volume = "17", number = "BR-3", pages = "1--7", month = jan, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v017.b03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v17/b03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-01-15; Accepted 2007-01-15", } @Article{Sanchez:2007:BRB, author = "Juana Sanchez", title = "Book Review: {{\booktitle{``Linear Models with R''}} and {\em ``Extending the Linear Model with R''}}", journal = j-J-STAT-SOFT, volume = "17", number = "BR-4", pages = "1--3", month = jan, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v017.b04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v17/b04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-01-16; Accepted 2007-01-16", } @Article{Maindonald:2007:BRB, author = "John Maindonald", title = "Book Review: {{\booktitle{Pattern Recognition and Machine Learning}}}", journal = j-J-STAT-SOFT, volume = "17", number = "BR-5", pages = "1--3", month = jan, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v017.b05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v17/b05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-01-31; Accepted 2007-01-31", } @Article{Sardy:2007:BRB, author = "Sylvain Sardy and Valerie Chavez-Demoulin", title = "Book Review: {{\booktitle{Modeling Financial Time Series with S-PLUS}} (2nd Edition)}", journal = j-J-STAT-SOFT, volume = "17", number = "BR-6", pages = "1--2", month = feb, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v017.b06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v17/b06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-02-09; Accepted 2007-02-09", } @Article{Hankin:2007:CSU, author = "Robin K. S. Hankin", title = "Code Snippet: Urn Sampling Without Replacement: Enumerative Combinatorics in {R}", journal = j-J-STAT-SOFT, volume = "17", number = "CS-1", pages = "1--6", month = jan, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v017.c01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v17/c01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-08-22; Accepted 2007-01-03", } @Article{Bowman:2007:RSI, author = "Adrian Bowman and Ewan Crawford and Gavin Alexander and Richard W. Bowman", title = "\pkg{rpanel}: Simple Interactive Controls for {R} Functions Using the \pkg{tcltk} Package", journal = j-J-STAT-SOFT, volume = "17", number = "9", pages = "1--18", month = jan, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v017.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v17/i09", abstract = "In a variety of settings it is extremely helpful to be able to apply R functions through buttons, sliders and other types of graphical control. This is particularly true in plotting activities where immediate communication between such controls and a graphical display allows the user to interact with a plot in a very effective manner. The \pkg{tcltk} package provides extensive tools for this and the aim of the \pkg{rpanel} package is to provide simple and well documented functions which make these facilities as accessible as possible. In addition, the operations which form the basis of communication within \pkg{tcltk} are managed in a way which allows users to write functions with a more standard form of parameter passing. This paper describes the basic design of the software and illustrates it on a variety of examples of interactive control of graphics. The \pkg{tkrplot} system is used to allow plots to be integrated with controls into a single panel. An example of the use of a graphical image, and the ability to interact with this, is also discussed.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-08-29; Accepted 2007-01-01", xxtitle = "rpanel : Simple Interactive Controls for R Functions Using the tcltk Package", } @Article{Perez:2007:RJI, author = "Carlos Javier P{\'e}rez and Hansgeorg Schwibbe and Petra Weidner", title = "{RAGE}: a {Java}-implemented Visual Random Generator", journal = j-J-STAT-SOFT, volume = "17", number = "10", pages = "1--10", month = jan, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v017.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v17/i10", abstract = "Carefully designed Java applications turn out to be efficient and platform independent tools that can compete well with classical implementations of statistical software. The project presented here is an example underlining this statement for random variate generation. An end-user application called RAGE (Random Variate Generator) is developed to generate random variates from probability distributions. A Java class library called JDiscreteLib has been designed and implemented for the simulation of random variables from the most usual discrete distributions inside RAGE. For each distribution, specific and general algorithms are available for this purpose. RAGE can also be used as an interactive simulation tool for data and data summary visualization.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-03-30; Accepted 2007-01-31", xxtitle = "{RAGE} : A Java -implemented Visual Random Generator", } @Article{Mullen:2007:ISV, author = "Katharine M. Mullen and Ivo H. M. van Stokkum", title = "An Introduction to the {{\em ``Special Volume Spectroscopy and Chemometrics in R''}}", journal = j-J-STAT-SOFT, volume = "18", number = "1", pages = "1--5", month = jan, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v018.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v18/i01", abstract = "This special volume collates ten issues under the rubric ``Spectroscopy and Chemometrics in R''. In so doing, it provides an overview of the breadth, depth and state of the art of R-based software projects for spectroscopy and chemometrics applications. Just as the authors have contributed to R their documentation and source code, so has R contributed to the quality, standardization and dissemination of their software, as this volume attests. We hope that the volume is inspiring to both computational statisticians interested in applications of their methodologies and to spectroscopists or chemometricians in need of solutions to their data analysis problems.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-01-16; Accepted 2007-01-16", xxtitle = "An Introduction to the Special Volume {"}Spectroscopy and Chemometrics in R {"}", } @Article{Mevik:2007:PPP, author = "Bj{\"o}rn-Helge Mevik and Ron Wehrens", title = "The \pkg{pls} Package: Principal Component and Partial Least Squares Regression in {R}", journal = j-J-STAT-SOFT, volume = "18", number = "2", pages = "1--24", month = jan, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v018.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v18/i02", abstract = "The \pkg{pls} package implements principal component regression (PCR) and partial least squares regression (PLSR) in R (R Development Core Team 2006b), and is freely available from the Comprehensive R Archive Network (CRAN), licensed under the GNU General Public License (GPL). The user interface is modeled after the traditional formula interface, as exemplified by lm. This was done so that people used to R would not have to learn yet another interface, and also because we believe the formula interface is a good way of working interactively with models. It thus has methods for generic functions like predict, update and coef. It also has more specialised functions like scores, loadings and RMSEP, and a flexible cross-validation system. Visual inspection and assessment is important in chemometrics, and the \pkg{pls} package has a number of plot functions for plotting scores, loadings, predictions, coefficients and RMSEP estimates. The package implements PCR and several algorithms for PLSR. The design is modular, so that it should be easy to use the underlying algorithms in other functions. It is our hope that the package will serve well both for interactive data analysis and as a building block for other functions or packages using PLSR or PCR. We will here describe the package and how it is used for data analysis, as well as how it can be used as a part of other packages. Also included is a section about formulas and data frames, for people not used to the R modelling idioms.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-10-04; Accepted 2007-01-10", xxtitle = "The pls Package: Principal Component and Partial Least Squares Regression in R", } @Article{Mullen:2007:TRP, author = "Katharine M. Mullen and Ivo H. M. van Stokkum", title = "{TIMP}: An {R} Package for Modeling Multi-way Spectroscopic Measurements", journal = j-J-STAT-SOFT, volume = "18", number = "3", pages = "1--46", month = jan, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v018.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v18/i03", abstract = "TIMP is an R package for modeling multiway spectroscopic measurements. The package allows for the simultaneous analysis of datasets collected under different experimental conditions in terms of a wide variety of parametric models. Models arising in spectroscopy data analysis often have some parameters that are intrinstically nonlinear, and some parameters that are conditionally linear on estimates of the nonlinear parameters. TIMP fits such separable nonlinear models using partitioned variable projection, a variant of the variable projection algorithm that is described here for the first time. The of the partitioned variable projection algorithm allows fitting many models for spectroscopy datasets using much less memory as compared to under the standard variable projection algorithm that is implemented in nonlinear optimization routines (e.g., the plinear option of the R function nls), as is shown here. An overview of modeling with TIMP is also given that includes several case studies in the application of the package.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-10-01; Accepted 2007-01-10", xxtitle = "{TIMP} : An R Package for Modeling Multi-Way Spectroscopic Measurements", } @Article{Kirchner:2007:ARP, author = "Marc Kirchner and Benjamin Saussen and Hanno Steen and Judith A. J. Steen and Fred A. Hamprecht", title = "\pkg{amsrpm}: Robust Point Matching for Retention Time Alignment of {LC\slash MS} Data with {R}", journal = j-J-STAT-SOFT, volume = "18", number = "4", pages = "1--12", month = jan, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v018.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v18/i04", abstract = "Proteomics is the study of the abundance, function and dynamics of all proteins present in a living organism, and mass spectrometry (MS) has become its most important tool due to its unmatched sensitivity, resolution and potential for high-throughput experimentation. A frequently used variant of mass spectrometry is coupled with liquid chromatography (LC) and is denoted as ``LC/MS''. It produces two-dimensional raw data, where significant distortions along one of the dimensions can occur between different runs on the same instrument, and between instruments. A compensation of these distortions is required to allow for comparisons between and inference based on different experiments. This article introduces the \pkg{amsrpm} software package. It implements a variant of the Robust Point Matching (RPM) algorithm that is tailored for the alignment of LC and LC/MS experiments. Problem-specific enhancements include a specialized dissimilarity measure, and means to enforce smoothness and monotonicity of the estimated transformation function. The algorithm does not rely on pre-specified landmarks, it is insensitive towards outliers and capable of modeling nonlinear distortions. Its usefulness is demonstrated using both simulated and experimental data. The software is available as an open source package for the statistical programming language R.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-09-30; Accepted 2007-07-19", xxtitle = "amsrpm : Robust Point Matching for Retention Time Alignment of {LC}/{MS} Data with R", } @Article{Guha:2007:CIF, author = "Rajarshi Guha", title = "Chemical Informatics Functionality in {R}", journal = j-J-STAT-SOFT, volume = "18", number = "5", pages = "1--16", month = jan, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v018.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v18/i05", abstract = "The flexibility and scope of the R programming environment has made it a popular choice for statistical modeling and scientific prototyping in a number of fields. In the field of chemistry, R provides several tools for a variety of problems related to statistical modeling of chemical information. However, one aspect common to these tools is that they do not have direct access to the information that is available from chemical structures, such as contained in molecular descriptors.\par We describe the rcdk package that provides the R user with access to the CDK, a Java framework for cheminformatics. As a result, it is possible to read in a variety of molecular formats, calculate molecular descriptors and evaluate fingerprints. In addition, we describe the rpubchem that will allow access to the data in PubChem, a public repository of molecular structures and associated assay data for approximately 8 million compounds. Currently, the package allows access to structural information as well as some simple molecular properties from PubChem. In addition the package allows access to bio-assay data from the PubChem FTP servers.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-09-25; Accepted 2007-01-01", xxtitle = "Chemical Informatics Functionality in R", } @Article{Fraley:2007:MBM, author = "Chris Fraley and Adrian Raftery", title = "Model-based Methods of Classification: Using the mclust Software in Chemometrics", journal = j-J-STAT-SOFT, volume = "18", number = "6", pages = "1--13", month = jan, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v018.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v18/i06", abstract = "Due to recent advances in methods and software for model-based clustering, and to the interpretability of the results, clustering procedures based on probability models are increasingly preferred over heuristic methods. The clustering process estimates a model for the data that allows for overlapping clusters, producing a probabilistic clustering that quantifies the uncertainty of observations belonging to components of the mixture. The resulting clustering model can also be used for some other important problems in multivariate analysis, including density estimation and discriminant analysis. Examples of the use of model-based clustering and classification techniques in chemometric studies include multivariate image analysis, magnetic resonance imaging, microarray image segmentation, statistical process control, and food authenticity. We review model-based clustering and related methods for density estimation and discriminant analysis, and show how the R package mclust can be applied in each instance.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-09-27; Accepted 2007-01-10", xxtitle = "Model-based Methods of Classification: Using the mclust Software in Chemometrics", } @Article{Binsl:2007:FRP, author = "Thomas W. Binsl and Katharine M. Mullen and Ivo H. M. van Stokkum and Jaap Heringa and Johannes H. G. M. van Beek", title = "{FluxSimulator}: An {R} Package to Simulate Isotopomer Distributions in Metabolic Networks", journal = j-J-STAT-SOFT, volume = "18", number = "7", pages = "1--17", month = jan, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v018.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v18/i07", abstract = "The representation of biochemical knowledge in terms of fluxes (transformation rates) in a metabolic network is often a crucial step in the development of new drugs and efficient bioreactors. Mass spectroscopy (MS) and nuclear magnetic resonance spectroscopy (NMRS) in combination with ${}^{13}$C labeled substrates are experimental techniques resulting in data that may be used to quantify fluxes in the metabolic network underlying a process. The massive amount of data generated by spectroscopic experiments increasingly requires software which models the dynamics of the underlying biological system. In this work we present an approach to handle isotopomer distributions in metabolic networks using an object-oriented programming approach, implemented using S4 classes in R. The developed package is called FluxSimulator and provides a user friendly interface to specify the topological information of the metabolic network as well as carbon atom transitions in plain text files. The package automatically derives the mathematical representation of the formulated network, and assembles a set of ordinary differential equations (ODEs) describing the change of each isotopomer pool over time. These ODEs are subsequently solved numerically. In a case study FluxSimulator was applied to an example network. Our results indicate that the package is able to reproduce exact changes in isotopomer compositions of the metabolite pools over time at given flux rates.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-09-28; Accepted 2007-01-10", xxtitle = "{FluxSimulator} : An R Package to Simulate Isotopomer Distributions in Metabolic Networks", } @Article{Mullen:2007:FLI, author = "Sergey Laptenok and Katharine M. Mullen and Jan Willem Borst and Ivo H. M. van Stokkum and Vladimir V. Apanasovich and Antonie J. W. G. Visser", title = "Fluorescence Lifetime Imaging Microscopy ({FLIM}) Data Analysis with {TIMP}", journal = j-J-STAT-SOFT, volume = "18", number = "8", pages = "1--20", month = jan, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v018.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v18/i08", abstract = "Fluorescence Lifetime Imaging Microscopy (FLIM) allows fluorescence lifetime images of biological objects to be collected at 250 nm spatial resolution and at (sub-)nanosecond temporal resolution. Often $ n_{\rm comp} $ kinetic processes underlie the observed fluorescence at all locations, but the intensity of the fluorescence associated with each process varies per-location, i.e., per-pixel imaged. Then the statistical challenge is global analysis of the image: use of the fluorescence decay in time at all locations to estimate the $ n_{\rm comp} $ lifetimes associated with the kinetic processes, as well as the amplitude of each kinetic process at each location. Given that typical FLIM images represent on the order of $ 10^2 $ timepoints and $ 10^3 $ locations, meeting this challenge is computationally intensive. Here the utility of the TIMP package for R to solve parameter estimation problems arising in FLIM image analysis is demonstrated. Case studies on simulated and real data evidence the applicability of the partitioned variable projection algorithm implemented in TIMP to the problem domain, and showcase options included in the package for the visual validation of models for FLIM data.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-12-11; Accepted 2007-01-10", xxtitle = "Fluorescence Lifetime Imaging Microscopy ({FLIM}) Data Analysis with {TIMP}", } @Article{Ritter:2007:ICD, author = "Christian Ritter and Jean Gilliard", title = "{ImpuR}: a Collection of Diagnostic Tools Developed in {R} in the Context of Peak Impurity Detection in {HPLC-DAD} but Potentially Useful with Other Types of Time-Intensity Matrices", journal = j-J-STAT-SOFT, volume = "18", number = "9", pages = "1--18", month = jan, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v018.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v18/i09", abstract = "HPLC-DAD systems generate time intensity (absorbance) matrices called spectrochromatograms. Under good experimental conditions, spectro-chromatograms of elution peaks of pure analytes are bilinear products of a time peak and an absorbance spectrum. Co-eluting impurities create deviations from this pure bilinear structure. Unfortunately, other imperfections, such as scan averaging, large optical windows, imperfect lamp alignment, mobile phase fluctuations, etc. also create departures from the pure bilinear structure. This makes it hard to distinguish low concentration impurities from artifacts and hampers safe detection of contaminants. There are two main ways to deal with such artifacts: removal and simulation, and ImpuR provides R functions to do both and to integrate both approaches. More specifically, ImpuR provides a set of tools to explore time-intensity matrices with respect to their bilinear structure and departures from it. It includes exploratory graphs for bilinear matrices (bilinear residual graphs and singular value decompositions), spectral dissimilarity curves via window-evolving factor analysis with heteroscedasticity correction and the sine method, methods for removal of artifacts, and a comprehensive simulation tool to assess the impact of potential artifacts and to allow for the construction of guide curves for use with the sine method.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-10-24; Accepted 2007-01-11", xxtitle = "{ImpuR} : A Collection of Diagnostic Tools Developed in R in the Context of Peak Impurity Detection in {HPLC}-{DAD} but Potentially Useful with Other Types of Time-Intensity Matrices", } @Article{Krastev:2007:SSS, author = "Teodor Krastev", title = "\pkg{spectrino} Software: Spectra Visualization and Preparation for {R}", journal = j-J-STAT-SOFT, volume = "18", number = "10", pages = "1--16", month = jan, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v018.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v18/i10", abstract = "\pkg{spectrino} is a spectra preparation software utility for the R language and environment for statistical computing. It is an operating-system specific tool, for use under Microsoft Windows, with specialized visualization, organization and preprocessing features for spectra. The software accepts spectral data from analytical instruments and then prepares a data structure to be introduced in R. \pkg{spectrino} has a rich set of features to create data structures and visually manipulate/compare spectra. The application is accessible by a library of functions from within R. These commands allow for the creation and manipulation of data structures in \pkg{spectrino} and the selective extraction of spectral data. Before exporting, the spectra are preprocessed according the requirements of consecutive discriminant analysis. This preprocessing is adjustable by a series of options.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-10-01; Accepted 2007-01-10", } @Article{Babu:2007:URB, author = "G. Jogesh Babu and Ashish Mahabal", title = "Using {R}-based {VOStat} as a Low-Resolution Spectrum Analysis Tool", journal = j-J-STAT-SOFT, volume = "18", number = "11", pages = "1--12", month = jan, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v018.i11", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v18/i11", abstract = "We describe here an online software suite VOStat written mainly for the Virtual Observatory, a novel structure in which astronomers share terabyte scale data. Written mostly in the public-domain statistical computing language and environment R, it can do a variety of statistical analysis on multidimensional, multi-epoch data with errors. Included are techniques which allow astronomers to start with multi-color data in the form of low-resolution spectra and select special kinds of sources in a variety of ways including color outliers. Here we describe the tool and demonstrate it with an example from Palomar-QUEST, a synoptic sky survey.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-10-16; Accepted 2007-01-10", xxtitle = "Using R -based {VOStat} as a Low-Resolution Spectrum Analysis Tool", } @Article{deLeeuw:2007:BRB, author = "Jan de Leeuw", title = "Book Review: {{\booktitle{Computational Statistics}}}", journal = j-J-STAT-SOFT, volume = "19", number = "BR-1", pages = "1--3", month = mar, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v019.b01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v19/b01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-03-23; Accepted 2007-03-23", } @Article{Tanimura:2007:CSA, author = "Susumu Tanimura and Chusi Kuroiwa and Tsutomu Mizota", title = "Code Snippet: Auxiliary Cartographic Functions in {R}: North Arrow, Scale Bar, and Label with Leader Arrow", journal = j-J-STAT-SOFT, volume = "19", number = "CS-1", pages = "1--8", month = apr, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v019.c01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v19/c01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-12-27; Accepted 2007-04-10", } @Article{Polzehl:2007:ASD, author = "J{\"o}rg Polzehl and Karsten Tabelow", title = "Adaptive Smoothing of Digital Images: The {R} Package \pkg{adimpro}", journal = j-J-STAT-SOFT, volume = "19", number = "1", pages = "1--17", month = mar, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v019.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v19/i01", abstract = "Digital imaging has become omnipresent in the past years with a bulk of applications ranging from medical imaging to photography. When pushing the limits of resolution and sensitivity noise has ever been a major issue. However, commonly used non-adaptive filters can do noise reduction at the cost of a reduced effective spatial resolution only. Here we present a new package \pkg{adimpro} for R, which implements the propagation-separation approach by (Polzehl and Spokoiny 2006) for smoothing digital images. This method naturally adapts to different structures of different size in the image and thus avoids oversmoothing edges and fine structures. We extend the method for imaging data with spatial correlation. Furthermore we show how the estimation of the dependence between variance and mean value can be included. We illustrate the use of the package through some examples.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-10-27; Accepted 2007-03-27", xxtitle = "Adaptive Smoothing of Digital Images: The R Package adimpro", } @Article{Paciorek:2007:BSG, author = "Christopher J. Paciorek", title = "{Bayesian} Smoothing with {Gaussian} Processes Using {Fourier} Basis Functions in the \pkg{spectralGP} Package", journal = j-J-STAT-SOFT, volume = "19", number = "2", pages = "1--38", month = apr, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v019.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v19/i02", abstract = "The spectral representation of stationary Gaussian processes via the Fourier basis provides a computationally efficient specification of spatial surfaces and nonparametric regression functions for use in various statistical models. I describe the representation in detail and introduce the \pkg{spectralGP} package in R for computations. Because of the large number of basis coefficients, some form of shrinkage is necessary; I focus on a natural Bayesian approach via a particular parameterized prior structure that approximates stationary Gaussian processes on a regular grid. I review several models from the literature for data that do not lie on a grid, suggest a simple model modification, and provide example code demonstrating MCMC sampling using the \pkg{spectralGP} package. I describe reasons that mixing can be slow in certain situations and provide some suggestions for MCMC techniques to improve mixing, also with example code, and some general recommendations grounded in experience.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-08-09; Accepted 2007-04-10", xxtitle = "Bayesian Smoothing with Gaussian Processes Using Fourier Basis Functions in the {spectralGP} Package", } @Article{Headrick:2007:NCG, author = "Todd C. Headrick and Yanyan Sheng and Flaviu-Adrian Hodis", title = "Numerical Computing and Graphics for the Power Method Transformation Using {Mathematica}", journal = j-J-STAT-SOFT, volume = "19", number = "3", pages = "1--17", month = apr, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v019.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/mathematica.bib", URL = "http://www.jstatsoft.org/v19/i03", abstract = "This paper provides the requisite information and description of software that perform numerical computations and graphics for the power method polynomial transformation. The software developed is written in the Mathematica 5.2 package PowerMethod.m and is associated with fifth-order polynomials that are used for simulating univariate and multivariate non-normal distributions. The package is flexible enough to allow a user the choice to model theoretical pdfs, empirical data, or a user's own selected distribution(s). The primary functions perform the following (a) compute standardized cumulants and polynomial coefficients, (b) ensure that polynomial transformations yield valid pdfs, and (c) graph power method pdfs and cdfs. Other functions compute cumulative probabilities, modes, trimmed means, intermediate correlations, or perform the graphics associated with fitting power method pdfs to either empirical or theoretical distributions. Numerical examples and Monte Carlo results are provided to demonstrate and validate the use of the software package. The notebook Demo.nb is also provided as a guide for user of the power method.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-04-10; Accepted 2007-04-21", xxtitle = "Numerical Computing and Graphics for the Power Method Transformation Using Mathematica", } @Article{Finley:2007:SRP, author = "Andrew O. Finley and Sudipto Banerjee and Bradley P. Carlin", title = "\pkg{spBayes}: An {R} Package for Univariate and Multivariate Hierarchical Point-referenced Spatial Models", journal = j-J-STAT-SOFT, volume = "19", number = "4", pages = "1--24", month = apr, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v019.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v19/i04", abstract = "Scientists and investigators in such diverse fields as geological and environmental sciences, ecology, forestry, disease mapping, and economics often encounter spatially referenced data collected over a fixed set of locations with coordinates (latitude-longitude, Easting-Northing etc.) in a region of study. Such point-referenced or geostatistical data are often best analyzed with Bayesian hierarchical models. Unfortunately, fitting such models involves computationally intensive Markov chain Monte Carlo (MCMC) methods whose efficiency depends upon the specific problem at hand. This requires extensive coding on the part of the user and the situation is not helped by the lack of available software for such algorithms. Here, we introduce a statistical software package, \pkg{spBayes}, built upon the R statistical computing platform that implements a generalized template encompassing a wide variety of Gaussian spatial process models for univariate as well as multivariate point-referenced data. We discuss the algorithms behind our package and illustrate its use with a synthetic and real data example.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-10-29; Accepted 2007-04-24", xxtitle = "{spBayes} : An R Package for Univariate and Multivariate Hierarchical Point-referenced Spatial Models", } @Article{Baillargeon:2007:PRL, author = "Sophie Baillargeon and Louis-Paul Rivest", title = "\pkg{Rcapture}: Loglinear Models for Capture-Recapture in {R}", journal = j-J-STAT-SOFT, volume = "19", number = "5", pages = "1--31", month = apr, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v019.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v19/i05", abstract = "This article introduces \pkg{Rcapture}, an R package for capture-recapture experiments. The data for analysis consists of the frequencies of the observable capture histories over the t capture occasions of the experiment. A capture history is a vector of zeros and ones where one stands for a capture and zero for a miss. \pkg{Rcapture} can fit three types of models. With a closed population model, the goal of the analysis is to estimate the size N of the population which is assumed to be constant throughout the experiment. The estimator depends on the way in which the capture probabilities of the animals vary. \pkg{Rcapture} features several models for these capture probabilities that lead to different estimators for N. In an open population model, immigration and death occur between sampling periods. The estimation of survival rates is of primary interest. \pkg{Rcapture} can fit the basic Cormack-Jolly-Seber and Jolly-Seber model to such data. The third type of models fitted by \pkg{Rcapture} are robust design models. It features two levels of sampling; closed population models apply within primary periods and an open population model applies between periods. Most models in \pkg{Rcapture} have a loglinear form; they are fitted by carrying out a Poisson regression with the R function \pkg{glm}. Estimates of the demographic parameters of interest are derived from the loglinear parameter estimates; their variances are obtained by linearization. The novel feature of this package is the provision of several new options for modeling capture probabilities heterogeneity between animals in both closed population models and the primary periods of a robust design. It also implements many of the techniques developed by R. M. Cormack for open population models.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-07-12; Accepted 2007-04-03", xxtitle = "The Rcapture Package: Loglinear Models for Capture-Recapture in R", } @Article{Brown:2007:RAM, author = "J. Randall Brown and Milton E. Harvey", title = "Rational Arithmetic {Mathematica} Functions to Evaluate the One-sided One-sample {K-S} Cumulative Sample Distribution", journal = j-J-STAT-SOFT, volume = "19", number = "6", pages = "1--32", month = mar, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v019.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/mathematica.bib", URL = "http://www.jstatsoft.org/v19/i06", abstract = "One of the most widely used goodness-of-fit tests is the Kolmogorov--Smirnov (KS) family of tests which have been implemented by many computer statistical software packages. To calculate a p value (evaluate the cumulative sampling distribution), these packages use various methods including recursion formulae, limiting distributions, and approximations of unknown accuracy developed over thirty years ago. Based on an extensive literature search for the one-sided one-sample K-S test, this paper identifies two direct formulae and five recursion formulae that can be used to calculate a p value and then develops two additional direct formulae and four iterative versions of the direct formulae for a total of thirteen formulae. To ensure accurate calculation by avoiding catastrophic cancellation and eliminating rounding error, each formula is implemented in rational arithmetic. Linear search is used to calculate the inverse of the cumulative sampling distribution (find the confidence interval bandwidth). Extensive tables of bandwidths are presented for sample sizes up to 2, 000. The results confirm the hypothesis that as the number of digits in the numerator and denominator integers of the rational number test statistic increases, the computation time also increases. In comparing the computational times of the thirteen formulae, the direct formulae are slightly faster than their iterative versions and much faster than all the recursion formulae. Computational times for the fastest formula are given for sample sizes up to fifty thousand.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-06-08; Accepted 2007-03-17", xxtitle = "Rational Arithmetic Mathematica Functions to Evaluate the One-sided One-sample K-S Cumulative Sampling Distribution", } @Article{Carrigan:2007:CMD, author = "Gretchen Carrigan and Adrian G. Barnett and Annette J. Dobson and Gita Mishra", title = "Compensating for Missing Data from Longitudinal Studies Using {WinBUGS}", journal = j-J-STAT-SOFT, volume = "19", number = "7", pages = "1--17", month = jun, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v019.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v19/i07", abstract = "Missing data is a common problem in survey based research. There are many packages that compensate for missing data but few can easily compensate for missing longitudinal data. WinBUGS compensates for missing data using multiple imputation, and is able to incorporate longitudinal structure using random effects. We demonstrate the superiority of longitudinal imputation over cross-sectional imputation using WinBUGS. We use example data from the Australian Longitudinal Study on Women's Health. We give a SAS macro that uses WinBUGS to analyze longitudinal models with missing covariate date, and demonstrate its use in a longitudinal study of terminal cancer patients and their carers.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-11-30; Accepted 2007-06-07", xxtitle = "Compensating for Missing Data from Longitudinal Studies Using {WinBUGS}", } @Article{Lenth:2007:SLP, author = "Russell V. Lenth and S{\o}ren H{\o}jsgaard", title = "{SASweave}: Literate Programming Using {SAS}", journal = j-J-STAT-SOFT, volume = "19", number = "8", pages = "1--20", month = may, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v019.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v19/i08", abstract = "SASweave is a collection of scripts that allow one to embed SAS code into a {\LaTeX} document, and automatically incorporate the results as well. SASweave is patterned after Sweave, which does the same thing for code written in R. In fact, a document may contain both SAS and R code. Besides the convenience of being able to easily incorporate SAS examples in a document, SASweave facilitates the concept of ``literate programming'': having code, documentation, and results packaged together. Among other things, this helps to ensure that the SAS output in the document is in concordance with the code.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-02-14; Accepted 2007-05-27", xxtitle = "{SASweave} : Literate Programming Using {SAS}", } @Article{Gramacy:2007:TRP, author = "Robert B. Gramacy", title = "\pkg{tgp}: An {R} Package for {Bayesian} Nonstationary, Semiparametric Nonlinear Regression and Design by Treed {Gaussian} Process Models", journal = j-J-STAT-SOFT, volume = "19", number = "9", pages = "1--46", month = jun, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v019.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:15 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v19/i09", abstract = "The \pkg{tgp} package for R is a tool for fully Bayesian nonstationary, semiparametric nonlinear regression and design by treed Gaussian processes with jumps to the limiting linear model. Special cases also implemented include Bayesian linear models, linear CART, stationary separable and isotropic Gaussian processes. In addition to inference and posterior prediction, the package supports the (sequential) design of experiments under these models paired with several objective criteria. 1-d and 2-d plotting, with higher dimension projection and slice capabilities, and tree drawing functions (requiring maptree and combinat packages), are also provided for visualization of \pkg{tgp} objects.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-07-12; Accepted 2007-06-13", xxtitle = "tgp : An R Package for Bayesian Nonstationary, Semiparametric Nonlinear Regression and Design by Treed Gaussian Process Models", } @Article{deLeeuw:2007:ISV, author = "Jan de Leeuw and Patrick Mair", title = "An Introduction to the Special Volume on {{\em ``Psychometrics in R''}}", journal = j-J-STAT-SOFT, volume = "20", number = "1", pages = "1--5", month = may, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v020.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v20/i01", abstract = "This special volume presents a select number of psychometric techniques, many of them original, and their implementation in R packages.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-07-12; Accepted 2007-05-01", xxtitle = "An Introduction to the Special Volume on {"}Psychometrics in R {"}", } @Article{Doran:2007:EMR, author = "Harold Doran and Douglas Bates and Paul Bliese and Maritza Dowling", title = "Estimating the Multilevel {Rasch} Model: With the \pkg{lme4} Package", journal = j-J-STAT-SOFT, volume = "20", number = "2", pages = "1--18", month = feb, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v020.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v20/i02", abstract = "Traditional Rasch estimation of the item and student parameters via marginal maximum likelihood, joint maximum likelihood or conditional maximum likelihood, assume individuals in clustered settings are uncorrelated and items within a test that share a grouping structure are also uncorrelated. These assumptions are often violated, particularly in educational testing situations, in which students are grouped into classrooms and many test items share a common grouping structure, such as a content strand or a reading passage. Consequently, one possible approach is to explicitly recognize the clustered nature of the data and directly incorporate random effects to account for the various dependencies. This article demonstrates how the multilevel Rasch model can be estimated using the functions in R for mixed-effects models with crossed or partially crossed random effects. We demonstrate how to model the following hierarchical data structures: (a) individuals clustered in similar settings (e.g., classrooms, schools), (b) items nested within a particular group (such as a content strand or a reading passage), and (c) how to estimate a teacher $ \times $ content strand interaction.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-10-01; Accepted 2007-02-22", xxtitle = "Estimating the Multilevel Rasch Model: With the lme4 Package", } @Article{Nenadic:2007:RS, author = "Oleg Nenadi{\'c} and Michael Greenacre", title = "Correspondence Analysis in {R}, with Two- and Three-dimensional Graphics: The \pkg{ca} Package", journal = j-J-STAT-SOFT, volume = "20", number = "3", pages = "1--13", month = feb, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v020.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v20/i03", abstract = "We describe an implementation of simple, multiple and joint correspondence analysis in R. The resulting package comprises two parts, one for simple correspondence analysis and one for multiple and joint correspondence analysis. Within each part, functions for computation, summaries and visualization in two and three dimensions are provided, including options to display supplementary points and perform subset analyses. Special emphasis has been put on the visualization functions that offer features such as different scaling options for biplots and three-dimensional maps using the rgl package. Graphical options include shading and sizing plot symbols for the points according to their contributions to the map and masses respectively.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-10-01; Accepted 2007-02-22", xxtitle = "Correspondence Analysis in R , with Two- and Three-dimensional Graphics: The ca Package", } @Article{Verhelst:2007:RS, author = "Norman D. Verhelst and Reinhold Hatzinger and Patrick Mair", title = "The {Rasch} Sampler", journal = j-J-STAT-SOFT, volume = "20", number = "4", pages = "1--14", month = feb, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v020.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v20/i04", abstract = "The Rasch sampler is an efficient algorithm to sample binary matrices with given marginal sums. It is a Markov chain Monte Carlo (MCMC) algorithm. The program can handle matrices of up to 1024 rows and 64 columns. A special option allows to sample square matrices with given marginals and fixed main diagonal, a problem prominent in social network analysis. In all cases the stationary distribution is uniform. The user has control on the serial dependency.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-10-01; Accepted 2007-02-22", xxtitle = "The Rasch Sampler", } @Article{Fox:2007:MIM, author = "Jean-Paul Fox", title = "Multilevel {IRT} Modeling in Practice with the Package \pkg{mlirt}", journal = j-J-STAT-SOFT, volume = "20", number = "5", pages = "1--16", month = feb, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v020.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v20/i05", abstract = "Variance component models are generally accepted for the analysis of hierarchical structured data. A shortcoming is that outcome variables are still treated as measured without an error. Unreliable variables produce biases in the estimates of the other model parameters. The variability of the relationships across groups and the group-effects on individuals' outcomes differ substantially when taking the measurement error in the dependent variable of the model into account. The multilevel model can be extended to handle measurement error using an item response theory (IRT) model, leading to a multilevel IRT model. This extended multilevel model is in particular suitable for the analysis of educational response data where students are nested in schools and schools are nested within cities/countries.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-10-01; Accepted 2007-02-22", xxtitle = "Multilevel {IRT} Modeling in Practice with the Package mlirt", } @Article{Anderson:2007:EMR, author = "Carolyn J. Anderson and Zhushan Li and Jeroen K. Vermunt", title = "Estimation of Models in a {Rasch} Family for Polytomous Items and Multiple Latent Variables", journal = j-J-STAT-SOFT, volume = "20", number = "6", pages = "1--36", month = feb, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v020.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v20/i06", abstract = "The Rasch family of models considered in this paper includes models for polytomous items and multiple correlated latent traits, as well as for dichotomous items and a single latent variable. An R package is described that computes estimates of parameters and robust standard errors of a class of log-linear-by-linear association (LLLA) models, which are derived from a Rasch family of models. The LLLA models are special cases of log-linear models with bivariate interactions. Maximum likelihood estimation of LLLA models in this form is limited to relatively small problems; however, pseudo-likelihood estimation overcomes this limitation. Maximizing the pseudo-likelihood function is achieved by maximizing the likelihood of a single conditional multinomial logistic regression model. The parameter estimates are asymptotically normal and consistent. Based on our simulation studies, the pseudo-likelihood and maximum likelihood estimates of the parameters of LLLA models are nearly identical and the loss of efficiency is negligible. Recovery of parameters of Rasch models fit to simulated data is excellent.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-10-01; Accepted 2007-07-26", xxtitle = "Estimation of Models in a Rasch Family for Polytomous Items and Multiple Latent Variables", } @Article{Fox:2007:MRR, author = "Jean-Paul Fox and Rinke Klein Entink and Wim van der Linden", title = "Modeling of Responses and Response Times with the Package \pkg{cirt}", journal = j-J-STAT-SOFT, volume = "20", number = "7", pages = "1--14", month = feb, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v020.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v20/i07", abstract = "In computerized testing, the test takers' responses as well as their response times on the items are recorded. The relationship between response times and response accuracies is complex and varies over levels of observation. For example, it takes the form of a tradeoff between speed and accuracy at the level of a fixed person but may become a positive correlation for a population of test takers. In order to explore such relationships and test hypotheses about them, a conjoint model is proposed. Item responses are modeled by a two-parameter normal-ogive IRT model and response times by a lognormal model. The two models are combined using a hierarchical framework based on the fact that response times and responses are nested within individuals. All parameters can be estimated simultaneously using an MCMC estimation approach. A R-package for the MCMC algorithm is presented and explained.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-10-01; Accepted 2007-02-22", xxtitle = "Modeling of Responses and Response Times with the Package cirt", } @Article{Kelley:2007:CIS, author = "Ken Kelley", title = "Confidence Intervals for Standardized Effect Sizes: Theory, Application, and Implementation", journal = j-J-STAT-SOFT, volume = "20", number = "8", pages = "1--24", month = feb, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v020.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v20/i08", abstract = "The behavioral, educational, and social sciences are undergoing a paradigmatic shift in methodology, from disciplines that focus on the dichotomous outcome of null hypothesis significance tests to disciplines that report and interpret effect sizes and their corresponding confidence intervals. Due to the arbitrariness of many measurement instruments used in the behavioral, educational, and social sciences, some of the most widely reported effect sizes are standardized. Although forming confidence intervals for standardized effect sizes can be very beneficial, such confidence interval procedures are generally difficult to implement because they depend on noncentral $t$, $F$, and $ x^2$ distributions. At present, no main-stream statistical package provides exact confidence intervals for standardized effects without the use of specialized programming scripts. Methods for the Behavioral, Educational, and Social Sciences (MBESS) is an R package that has routines for calculating confidence intervals for noncentral $t$, $F$, and $ x^2$ distributions, which are then used in the calculation of exact confidence intervals for standardized effect sizes by using the confidence interval transformation and inversion principles. The present article discusses the way in which confidence intervals are formed for standardized effect sizes and illustrates how such confidence intervals can be easily formed using MBESS in R.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-10-01; Accepted 2007-07-30", xxtitle = "Confidence Intervals for Standardized Effect Sizes: Theory, Application, and Implementation", } @Article{Mair:2007:ERM, author = "Patrick Mair and Reinhold Hatzinger", title = "Extended {Rasch} Modeling: The \pkg{eRm} Package for the Application of {IRT} Models in {R}", journal = j-J-STAT-SOFT, volume = "20", number = "9", pages = "1--20", month = feb, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v020.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v20/i09", abstract = "Item response theory models (IRT) are increasingly becoming established in social science research, particularly in the analysis of performance or attitudinal data in psychology, education, medicine, marketing and other fields where testing is relevant. We propose the R package \pkg{eRm} (extended Rasch modeling) for computing Rasch models and several extensions. A main characteristic of some IRT models, the Rasch model being the most prominent, concerns the separation of two kinds of parameters, one that describes qualities of the subject under investigation, and the other relates to qualities of the situation under which the response of a subject is observed. Using conditional maximum likelihood (CML) estimation both types of parameters may be estimated independently from each other. IRT models are well suited to cope with dichotomous and polytomous responses, where the response categories may be unordered as well as ordered. The incorporation of linear structures allows for modeling the effects of covariates and enables the analysis of repeated categorical measurements. The \pkg{eRm} package fits the following models: the Rasch model, the rating scale model (RSM), and the partial credit model (PCM) as well as linear reparameterizations through covariate structures like the linear logistic test model (LLTM), the linear rating scale model (LRSM), and the linear partial credit model (LPCM). We use an unitary, efficient CML approach to estimate the item parameters and their standard errors. Graphical and numeric tools for assessing goodness-of-fit are provided.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-10-01; Accepted 2007-02-22", xxtitle = "Extended Rasch Modeling: The {eRm} Package for the Application of {IRT} Models in R", } @Article{Johnson:2007:MML, author = "Matthew S. Johnson", title = "Marginal Maximum Likelihood Estimation of Item Response Models in {R}", journal = j-J-STAT-SOFT, volume = "20", number = "10", pages = "1--24", month = feb, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v020.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v20/i10", abstract = "Item response theory (IRT) models are a class of statistical models used by researchers to describe the response behaviors of individuals to a set of categorically scored items. The most common IRT models can be classified as generalized linear fixed- and/or mixed-effect models. Although IRT models appear most often in the psychological testing literature, researchers in other fields have successfully utilized IRT-like models in a wide variety of applications. This paper discusses the three major methods of estimation in IRT and develops R functions utilizing the built-in capabilities of the R environment to find the marginal maximum likelihood estimates of the generalized partial credit model. The currently available R packages \pkg{ltm} is also discussed.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-10-01; Accepted 2007-02-22", xxtitle = "Marginal Maximum Likelihood Estimation of Item Response Models in R", } @Article{vanderArk:2007:MSA, author = "L. Andries van der Ark", title = "{Mokken} Scale Analysis in {R}", journal = j-J-STAT-SOFT, volume = "20", number = "11", pages = "1--19", month = feb, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v020.i11", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v20/i11", abstract = "Mokken scale analysis (MSA) is a scaling procedure for both dichotomous and polytomous items. It consists of an item selection algorithm to partition a set of items into Mokken scales and several methods to check the assumptions of two nonparametric item response theory models: the monotone homogeneity model and the double monotonicity model. First, we present an R package mokken for MSA and explain the procedures. Second, we show how to perform MSA in R using test data obtained with the Adjective Checklist.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-10-01; Accepted 2007-02-22", xxtitle = "Mokken Scale Analysis in R", } @Article{Hilbe:2007:BRB, author = "Joseph Hilbe", title = "Book Review: {{\booktitle{Bayesian Core: A Practical Approach to Bayesian Computational Statistics}}}", journal = j-J-STAT-SOFT, volume = "21", number = "BR-1", pages = "1--5", month = jul, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v021.b01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v21/b01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-07-30; Accepted 2007-07-30", } @Article{Sabatti:2007:BRB, author = "Chiara Sabatti", title = "Book Review: {{\booktitle{The Statistics of Gene Mapping}}}", journal = j-J-STAT-SOFT, volume = "21", number = "BR-2", pages = "1--2", month = sep, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v021.b02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v21/b02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-09-03; Accepted 2007-09-03", } @Article{Gumprecht:2007:BRB, author = "Daniela Gumprecht", title = "Book Review: {{\booktitle{Model-based Geostatistics}}}", journal = j-J-STAT-SOFT, volume = "21", number = "BR-3", pages = "1--2", month = sep, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v021.b03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v21/b03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-09-03; Accepted 2007-09-03", } @Article{Myers:2007:CSE, author = "James Myers and Shih-Feng Huang and Jhishen Tsay", title = "Code Snippet: Exact Conditional Inference for Two-way Randomized {Bernoulli} Experiments", journal = j-J-STAT-SOFT, volume = "21", number = "CS-1", pages = "1--7", month = sep, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v021.c01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v21/c01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-05-14; Accepted 2007-09-02", } @Article{Atman:2007:ATA, author = "Micah Atman and Jeff Gill and Michael P. McDonald", title = "\pkg{accuracy}: Tools for Accurate and Reliable Statistical Computing", journal = j-J-STAT-SOFT, volume = "21", number = "1", pages = "1--30", month = jul, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v021.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v21/i01", abstract = "Most empirical social scientists are surprised that low-level numerical issues in software can have deleterious effects on the estimation process. Statistical analyses that appear to be perfectly successful can be invalidated by concealed numerical problems. We have developed a set of tools, contained in \pkg{accuracy}, a package for R and S-PLUS, to diagnose problems stemming from numerical and measurement error and to improve the accuracy of inferences. The tools included in \pkg{accuracy} include a framework for gauging the computational stability of model results, tools for comparing model results, optimization diagnostics, and tools for collecting entropy for true random numbers generation.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-02-28; Accepted 2007-06-25", xxtitle = "accuracy : Tools for Accurate and Reliable Statistical Computing", } @Article{Raimondo:2007:WTR, author = "Marc Raimondo and Michael Stewart", title = "The {WaveD} Transform in {R}: Performs Fast Translation-Invariant Wavelet Deconvolution", journal = j-J-STAT-SOFT, volume = "21", number = "2", pages = "1--28", month = jul, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v021.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v21/i02", abstract = "This paper provides an introduction to a software package called waved making available all code necessary for reproducing the figures in the recently published articles on the WaveD transform for wavelet deconvolution of noisy signals. The forward WaveD transforms and their inverses can be computed using any wavelet from the Meyer family. The WaveD coefficients can be depicted according to time and resolution in several ways for data analysis. The algorithm which implements the translation invariant WaveD transform takes full advantage of the fast Fourier transform (FFT) and runs in $ O(n(\log n)^2) $ steps only. The waved package includes functions to perform thresholding and tne resolution tuning according to methods in the literature as well as newly designed visual and statistical tools for assessing WaveD fits. We give a waved tutorial session and review benchmark examples of noisy convolutions to illustrate the non-linear adaptive properties of wavelet deconvolution.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-03-06; Accepted 2007-04-20", xxtitle = "The {WaveD} Transform in R : Performs Fast Translation-Invariant Wavelet Deconvolution", } @Article{Zamar:2007:ESI, author = "David Zamar and Brad McNeney and Jinko Graham", title = "\pkg{elrm}: Software Implementing Exact-Like Inference for Logistic Regression Models", journal = j-J-STAT-SOFT, volume = "21", number = "3", pages = "1--18", month = oct, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v021.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v21/i03", abstract = "Exact inference is based on the conditional distribution of the sufficient statistics for the parameters of interest given the observed values for the remaining sufficient statistics. Exact inference for logistic regression can be problematic when data sets are large and the support of the conditional distribution cannot be represented in memory. Additionally, these methods are not widely implemented except in commercial software packages such as LogXact and SAS. Therefore, we have developed \pkg{elrm}, software for R implementing (approximate) exact inference for binomial regression models from large data sets. We provide a description of the underlying statistical methods and illustrate the use of \pkg{elrm} with examples. We also evaluate \pkg{elrm} by comparing results with those obtained using other methods.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-01-15; Accepted 2007-09-03", xxtitle = "elrm : Software Implementing Exact-like Inference for Logistic Regression Models", } @Article{Yan:2007:EJC, author = "Jun Yan", title = "Enjoy the Joy of Copulas: With a Package \pkg{copula}", journal = j-J-STAT-SOFT, volume = "21", number = "4", pages = "1--21", month = oct, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v021.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v21/i04", abstract = "Copulas have become a popular tool in multivariate modeling successfully applied in many fields. A good open-source implementation of copulas is much needed for more practitioners to enjoy the joy of copulas. This article presents the design, features, and some implementation details of the R package \pkg{copula}. The package provides a carefully designed and easily extensible platform for multivariate modeling with copulas in R. S4 classes for most frequently used elliptical copulas and Archimedean copulas are implemented, with methods for density/distribution evaluation, random number generation, and graphical display. Fitting copula-based models with maximum likelihood method is provided as template examples. With the classes and methods in the package, the package can be easily extended by user-defined copulas and margins to solve problems.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-12-02; Accepted 2007-09-11", xxtitle = "Enjoy the Joy of Copulas: With a Package copula", } @Article{Wehrens:2007:SSO, author = "Ron Wehrens and Lutgarde M. C. Buydens", title = "Self- and Super-organizing Maps in {R}: The \pkg{kohonen} Package", journal = j-J-STAT-SOFT, volume = "21", number = "5", pages = "1--19", month = oct, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v021.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v21/i05", abstract = "In this age of ever-increasing data set sizes, especially in the natural sciences, visualisation becomes more and more important. Self-organizing maps have many features that make them attractive in this respect: they do not rely on distributional assumptions, can handle huge data sets with ease, and have shown their worth in a large number of applications. In this paper, we highlight the \pkg{kohonen} package for R, which implements self-organizing maps as well as some extensions for supervised pattern recognition and data fusion.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-05-04; Accepted 2007-10-08", xxtitle = "Self- and Super-organizing Maps in R : The kohonen Package", } @Article{Somerville:2007:CCV, author = "Paul N. Somerville", title = "Calculation of Critical Values for {Somerville}'s {FDR} Procedures", journal = j-J-STAT-SOFT, volume = "21", number = "6", pages = "1--14", month = oct, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v021.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v21/i06", abstract = "A Fortran 95 program has been written to calculate critical values for the step-up and step-down FDR procedures developed by Somerville (2004). The program allows for arbitrary selection of number of hypotheses, FDR rate, one- or two-sided hypotheses, common correlation coefficient of the test statistics and degrees of freedom. An MCV (minimum critical value) may be specified, or the program will calculate a specified number of critical values or steps in an FDR procedure. The program can also be used to efficiently ascertain an upper bound to the number of hypotheses which the procedure will reject, given either the values of the test statistics, or their p values. Limiting the number of steps in an FDR procedure can be used to control the number or proportion of false discoveries (Somerville and Hemmelmann 2007). Using the program to calculate the largest critical values makes possible efficient use of the FDR procedures for very large numbers of hypotheses.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-01-28; Accepted 2007-04-11", xxtitle = "Calculation of Critical Values for Somerville's {FDR} Procedures", } @Article{Duong:2007:KKD, author = "Tarn Duong", title = "\pkg{ks}: Kernel Density Estimation and Kernel Discriminant Analysis for Multivariate Data in {R}", journal = j-J-STAT-SOFT, volume = "21", number = "7", pages = "1--16", month = oct, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v021.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v21/i07", abstract = "Kernel smoothing is one of the most widely used non-parametric data smoothing techniques. We introduce a new R package \pkg{ks} for multivariate kernel smoothing. Currently it contains functionality for kernel density estimation and kernel discriminant analysis. It is a comprehensive package for bandwidth matrix selection, implementing a wide range of data-driven diagonal and unconstrained bandwidth selectors.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-03-04; Accepted 2007-09-12", xxtitle = "ks : Kernel Density Estimation and Kernel Discriminant Analysis for Multivariate Data in R", } @Article{Schmid:2007:BAP, author = "Volker J. Schmid and Leonhard Held", title = "{Bayesian} Age-Period-Cohort Modeling and Prediction --- {BAMP}", journal = j-J-STAT-SOFT, volume = "21", number = "8", pages = "1--15", month = oct, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v021.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v21/i08", abstract = "The software package BAMP provides a method of analyzing incidence or mortality data on the Lexis diagram, using a Bayesian version of an age-period-cohort model. A hierarchical model is assumed with a binomial model in the first-stage. As smoothing priors for the age, period and cohort parameters random walks of first and second order, with and without an additional unstructured component are available. Unstructured heterogeneity can also be included in the model. In order to evaluate the model fit, posterior deviance, DIC and predictive deviances are computed. By projecting the random walk prior into the future, future death rates can be predicted.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-09-04; Accepted 2007-10-01", xxtitle = "Bayesian Age-Period-Cohort Modeling and Prediction - {BAMP}", } @Article{Su:2007:FSM, author = "Steve Su", title = "Fitting Single and Mixture of Generalized Lambda Distributions to Data via Discretized and Maximum Likelihood Methods: {GLDEX} in {R}", journal = j-J-STAT-SOFT, volume = "21", number = "9", pages = "1--17", month = oct, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v021.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v21/i09", abstract = "This paper describes the use of GLDEX in R to fit distributions to empirical data using the discretized and maximum likelihood methods. The GLDEX package also provides diagnostic tests to examine the quality of fit through the resample Kolmogorov-Smirnoff test, quantile plots and comparison of the mean, variance, skewness and kurtosis between the empirical data and the fitted distribution.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-11-07; Accepted 2007-09-15", xxtitle = "Fitting Single and Mixture of Generalized Lambda Distributions to Data via Discretized and Maximum Likelihood Methods: {GLDEX} in R", } @Article{Nguyen:2007:NSE, author = "Paul Nguyen", title = "\pkg{nonbinROC}: Software for Evaluating Diagnostic Accuracies with Non-Binary Gold Standards", journal = j-J-STAT-SOFT, volume = "21", number = "10", pages = "1--10", month = nov, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v021.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v21/i10", abstract = "ROC analysis is a standard method for estimating and comparing diagnostic tests' accuracies when the gold standard is binary. However, there are many situations when the gold standard is not binary. In these situations, traditional ROC methods applied have lead to biased and uninformative outcomes. This article introduces nonbinROC, software for R that implements nonparametric estimators proposed by Obuchowski (2005) for estimating and comparing diagnostic tests' accuracies when the gold standard is measured on a continuous, ordinal or nominal scale. The results produced from these estimators are interpreted in the same manner as in ROC analysis but are not associated with any ROC curve.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-09-25; Accepted 2007-09-06", xxtitle = "{nonbinROC} : Software for Evaluating Diagnostic Accuracies with Non-Binary Gold Standards", } @Article{Smith:2007:PBR, author = "Brian J. Smith", title = "\pkg{boa}: An {R} Package for {MCMC} Output Convergence Assessment and Posterior Inference", journal = j-J-STAT-SOFT, volume = "21", number = "11", pages = "1--37", month = nov, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v021.i11", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v21/i11", abstract = "Markov chain Monte Carlo (MCMC) is the most widely used method of estimating joint posterior distributions in Bayesian analysis. The idea of MCMC is to iteratively produce parameter values that are representative samples from the joint posterior. Unlike frequentist analysis where iterative model fitting routines are monitored for convergence to a single point, MCMC output is monitored for convergence to a distribution. Thus, specialized diagnostic tools are needed in the Bayesian setting. To this end, the R package \pkg{boa} was created. This manuscript presents the user's manual for \pkg{boa}, which outlines the use of and methodology upon which the software is based. Included is a description of the menu system, data management capabilities, and statistical/graphical methods for convergence assessment and posterior inference. Throughout the manual, a linear regression example is used to illustrate the software.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-04-27; Accepted 2007-10-14", xxtitle = "boa : An R Package for {MCMC} Output Convergence Assessment and Posterior Inference", } @Article{Wickham:2007:RDR, author = "Hadley Wickham", title = "Reshaping Data with the \pkg{reshape} Package", journal = j-J-STAT-SOFT, volume = "21", number = "12", pages = "1--20", month = nov, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v021.i12", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v21/i12", abstract = "This paper presents the \pkg{reshape} package for R, which provides a common framework for many types of data reshaping and aggregation. It uses a paradigm of melting' and 'casting', where the data are 'melted' into a form which distinguishes measured and identifying variables, and then 'cast' into a new shape, whether it be a data frame, list, or high dimensional array. The paper includes an introduction to the conceptual framework, practical advice for melting and casting, and a case study.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-02-25; Accepted 2007-09-15", xxtitle = "Reshaping Data with the reshape Package", } @Article{Kneib:2007:ISV, author = "Thomas Kneib and Thomas Petzoldt", title = "Introduction to the Special Volume on {{\em ``Ecology and Ecological Modeling in R''}}", journal = j-J-STAT-SOFT, volume = "22", number = "1", pages = "1--7", month = sep, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v022.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v22/i01", abstract = "The third special volume in the ``Foometrics in R'' series of the Journal of Statistical Software collects a number of contributions describing statistical methodology and corresponding implementations related to ecology and ecological modelling. The scope of the papers ranges from theoretical ecology and ecological modelling to statistical methodology relevant for data analyses in ecological applications.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-09-13; Accepted 2007-09-13", xxtitle = "Introduction to the Special Volume on {"}Ecology and Ecological Modelling in R {"}", } @Article{Simpson:2007:AMP, author = "Gavin L. Simpson", title = "Analogue Methods in Palaeoecology: Using the \pkg{analogue} Package", journal = j-J-STAT-SOFT, volume = "22", number = "2", pages = "1--29", month = sep, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v022.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v22/i02", abstract = "Palaeoecology is an important branch of ecology that uses the subfossil remains of organisms preserved in lake, ocean and bog sediments to inform on changes in ecosystems and the environment through time. The \pkg{analogue} package contains functions to perform modern analogue technique (MAT) transfer functions, which can be used to predict past changes in the environment, such as climate or lake-water pH from species data. A related technique is that of analogue matching, which is concerned with identifying modern sites that are floristically and faunistically similar to fossil samples. These techniques, and others, are increasingly being used to inform public policy on environmental pollution and conservation practices. These methods and other functionality in \pkg{analogue} are illustrated using the Surface Waters Acidification Project diatom:pH training set and diatom counts on samples of a sediment core from the Round Loch of Glenhead, Galloway, Scotland. The paper is aimed at palaeoecologists who are familiar with the techniques described but not with R.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-02-15; Accepted 2007-08-06", xxtitle = "Analogue Methods in Palaeoecology: Using the analogue Package", } @Article{Yuan:2007:MLM, author = "Lester L. Yuan", title = "Maximum Likelihood Method for Predicting Environmental Conditions from Assemblage Composition: The {R} Package \pkg{bio.infer}", journal = j-J-STAT-SOFT, volume = "22", number = "3", pages = "1--20", month = sep, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v022.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v22/i03", abstract = "This paper provides a brief introduction to the R package \pkg{bio.infer}, a set of scripts that facilitates the use of maximum likelihood (ML) methods for predicting environmental conditions from assemblage composition. Environmental conditions can often be inferred from only biological data, and these inferences are useful when other sources of data are unavailable. ML prediction methods are statistically rigorous and applicable to a broader set of problems than more commonly used weighted averaging techniques. However, ML methods require a substantially greater investment of time to program algorithms and to perform computations. This package is designed to reduce the effort required to apply ML prediction methods.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-01-10; Accepted 2007-06-22", xxtitle = "Maximum Likelihood Method for Predicting Environmental Conditions from Assemblage Composition: The R Package bio.infer", } @Article{Dray:2007:API, author = "St{\'e}phane Dray and Anne-B{\'e}atrice Dufour", title = "The \pkg{ade4} Package: Implementing the Duality Diagram for Ecologists", journal = j-J-STAT-SOFT, volume = "22", number = "4", pages = "1--20", month = sep, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v022.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v22/i04", abstract = "Multivariate analyses are well known and widely used to identify and understand structures of ecological communities. The \pkg{ade4} package for the R statistical environment proposes a great number of multivariate methods. Its implementation follows the tradition of the French school of ``Analyse des Donn{\'e}es'' and is based on the use of the duality diagram. We present the theory of the duality diagram and discuss its implementation in \pkg{ade4}. Classes and main functions are presented. An example is given to illustrate the \pkg{ade4} philosophy.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-02-13; Accepted 2007-06-04", xxtitle = "The ade4 Package: Implementing the Duality Diagram for Ecologists", } @Article{Thioulouse:2007:IMD, author = "Jean Thioulouse and St{\'e}phane Dray", title = "Interactive Multivariate Data Analysis in {R} with the \pkg{ade4} and \pkg{ade4TkGUI} Packages", journal = j-J-STAT-SOFT, volume = "22", number = "5", pages = "1--14", month = sep, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v022.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v22/i05", abstract = "\pkg{ade4} is a multivariate data analysis package for the R statistical environment, and \pkg{ade4TkGUI} is a Tcl/Tk graphical user interface for the most essential methods of \pkg{ade4}. Both packages are available on CRAN. An overview of \pkg{ade4TkGUI} is presented, and the pros and cons of this approach are discussed. We conclude that command line interfaces (CLI) and graphical user interfaces (GUI) are complementary. \pkg{ade4TkGUI} can be valuable for biologists and particularly for ecologists who are often occasional users of R. It can spare them having to acquire an in-depth knowledge of R, and it can help first time users in a first approach.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-01-08; Accepted 2007-10-02", xxtitle = "Interactive Multivariate Data Analysis in R with the ade4 and ade4TkGUI Packages", } @Article{Calenge:2007:EHS, author = "Cl{\'e}ment Calenge", title = "Exploring Habitat Selection by Wildlife with \pkg{adehabitat}", journal = j-J-STAT-SOFT, volume = "22", number = "6", pages = "1--19", month = sep, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v022.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v22/i06", abstract = "Knowledge of the environmental features affecting habitat selection by animals is important for designing wildlife management and conservation policies. The package \pkg{adehabitat} for the R software is designed to provide a computing environment for the analysis and modelling of such relationships. This paper focuses on the preliminary steps of data exploration and analysis, performed prior to a more formal modelling of habitat selection. In this context, I illustrate the use of a factorial analysis, the K-select analysis. This method is a factorial decomposition of marginality, one measure of habitat selection. This method was chosen to present the package because it illustrates clearly many of its features (home range estimation, spatial analyses, graphical possibilities, etc.). I strongly stress the powerful capabilities of factorial methods for data analysis, using as an example the analysis of habitat selection by the wild boar (Sus scrofa L.) in a Mediterranean environment.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-01-18; Accepted 2007-07-05", xxtitle = "Exploring Habitat Selection by Wildlife with adehabitat", } @Article{Goslee:2007:EPD, author = "Sarah C. Goslee and Dean L. Urban", title = "The \pkg{ecodist} Package for Dissimilarity-based Analysis of Ecological Data", journal = j-J-STAT-SOFT, volume = "22", number = "7", pages = "1--19", month = sep, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v022.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v22/i07", abstract = "Ecologists are concerned with the relationships between species composition and environmental framework incorporating space explicitly is an extremely flexible tool for answering these questions. The R package \pkg{ecodist} brings together methods for working with dissimilarities, including some not available in other R packages. We present some of the features of \pkg{ecodist}, particularly simple and partial Mantel tests, and make recommendations for their effective use. Although the partial Mantel test is often used to account for the effects of space, the assumption of linearity greatly reduces its effectiveness for complex spatial patterns. We introduce a modification of the Mantel correlogram designed to overcome this restriction and allow consideration of complex nonlinear structures. This extension of the method allows the use of partial multivariate correlograms and tests of relationship between variables at different spatial scales. Some of the possibilities are demonstrated using both artificial data and data from an ongoing study of plant community composition in grazing lands of the northeastern United States.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-01-09; Accepted 2007-06-11", xxtitle = "The ecodist Package for Dissimilarity-based Analysis of Ecological Data", } @Article{Jachner:2007:SMQ, author = "Stefanie Jachner and K. Gerald van den Boogaart and Thomas Petzoldt", title = "Statistical Methods for the Qualitative Assessment of Dynamic Models with Time Delay ({R} Package \pkg{qualV})", journal = j-J-STAT-SOFT, volume = "22", number = "8", pages = "1--30", month = sep, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v022.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v22/i08", abstract = "Results of ecological models differ, to some extent, more from measured data than from empirical knowledge. Existing techniques for validation based on quantitative assessments sometimes cause an underestimation of the performance of models due to time shifts, accelerations and delays or systematic differences between measurement and simulation. However, for the application of such models it is often more important to reproduce essential patterns instead of seemingly exact numerical values. This paper presents techniques to identify patterns and numerical methods to measure the consistency of patterns between observations and model results. An orthogonal set of deviance measures for absolute, relative and ordinal scale was compiled to provide informations about the type of difference. Furthermore, two different approaches accounting for time shifts were presented. The first one transforms the time to take time delays and speed differences into account. The second one describes known qualitative criteria dividing time series into interval units in accordance to their main features. The methods differ in their basic concepts and in the form of the resulting criteria. Both approaches and the deviance measures discussed are implemented in an R package. All methods are demonstrated by means of water quality measurements and simulation data. The proposed quality criteria allow to recognize systematic differences and time shifts between time series and to conclude about the quantitative and qualitative similarity of patterns.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-02-26; Accepted 2007-06-25", xxtitle = "Statistical Methods for the Qualitative Assessment of Dynamic Models with Time Delay ( R Package {qualV} )", } @Article{Petzoldt:2007:SOO, author = "Thomas Petzoldt and Karsten Rinke", title = "\pkg{simecol}: An Object-Oriented Framework for Ecological Modeling in {R}", journal = j-J-STAT-SOFT, volume = "22", number = "9", pages = "1--31", month = sep, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v022.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v22/i09", abstract = "The \pkg{simecol} package provides an open structure to implement, simulate and share ecological models. A generalized object-oriented architecture improves readability and potential code re-use of models and makes \pkg{simecol}-models freely extendible and simple to use. The \pkg{simecol} package was implemented in the S4 class system of the programming language R. Reference applications, e.g. predator-prey models or grid models are provided which can be used as a starting point for own developments. Compact example applications and the complete code of an individual-based model of the water flea Daphnia document the efficient usage of \pkg{simecol} for various purposes in ecological modeling, e.g. scenario analysis, stochastic simulations and individual based population dynamics. Ecologists are encouraged to exploit the abilities of \pkg{simecol} to structure their work and to use R and object-oriented programming as a suitable medium for the distribution and share of ecological modeling code.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-02-21; Accepted 2007-06-08", xxtitle = "simecol : An Object-Oriented Framework for Ecological Modeling in R", } @Article{Jones:2007:DPC, author = "James Holland Jones", title = "\pkg{demogR}: a Package for the Construction and Analysis of Age-structured Demographic Models in {R}", journal = j-J-STAT-SOFT, volume = "22", number = "10", pages = "1--28", month = sep, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v022.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v22/i10", abstract = "The analysis of matrix population models has become a fundamental tool in ecology, conservation biology, and life history theory. In this paper, I present \pkg{demogR}, a package for analyzing age-structured population models in R. The package includes tools for the construction and analysis of matrix population models. In addition to the standard analyses commonly used in evolutionary demography and conservation biology, \pkg{demogR} contains a variety of tools from classical demography. This includes the construction of period life tables, and the generation of model mortality and fertility schedules for human populations. The tools in \pkg{demogR} are generally applicable to age-structured populations but are particularly useful for analyzing problems in human ecology. I illustrate some of the capabilities of the package by doing an evolutionary demographic analysis of several human populations.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-02-17; Accepted 2007-08-28", xxtitle = "{demogR} : A Package for the Construction and Analysis of Age-structured Demographic Models in R", } @Article{Stubben:2007:EAD, author = "Chris Stubben and Brook Milligan", title = "Estimating and Analyzing Demographic Models Using the \pkg{popbio} Package in {R}", journal = j-J-STAT-SOFT, volume = "22", number = "11", pages = "1--23", month = sep, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v022.i11", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v22/i11", abstract = "A complete assessment of population growth and viability from field census data often requires complex data manipulations, statistical routines, mathematical tools, programming environments, and graphical capabilities. We therefore designed an R package called \pkg{popbio} to facilitate both the construction and analysis of projection matrix models. The package consists primarily of the R translation of MATLAB code found in Caswell (2001) and Morris and Doak (2002) for the analysis of projection matrix models. The package also includes methods to estimate vital rates and construct projection matrix models from census data typically collected in plant demography studies. In these studies, vital rates can often be estimated directly from annual censuses of tagged individuals using transition frequency tables. Because the construction of projection matrix models requires careful management of census data, we describe the steps to construct a projection matrix in detail.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-02-16; Accepted 2007-08-28", xxtitle = "Estimating and Analyzing Demographic Models Using the popbio Package in R", } @Article{Hankin:2007:IUR, author = "Robin K. S. Hankin", title = "Introducing \pkg{untb}, an {R} Package For Simulating Ecological Drift Under the Unified Neutral Theory of Biodiversity", journal = j-J-STAT-SOFT, volume = "22", number = "12", pages = "1--15", month = sep, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v022.i12", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v22/i12", abstract = "The distribution of abundance amongst species with similar ways of life is a classical problem in ecology. The unified neutral theory of biodiversity, due to Hubbell, states that observed population dynamics may be explained on the assumption of per capita equivalence amongst individuals. One can thus dispense with differences between species, and differences between abundant and rare species: a ll individuals behave alike in respect of their probabilities of reproducing and death. It is a striking fact that such a parsimonious theory results in a non-trivial dominance-diversity curve (that is, the simultaneous existence of both abundant and rare species) and even more striking that the theory predicts abundance curves that match observations across a wide range of ecologies. This paper introduces the \pkg{untb} package of R routines, for numerical simulation of ecological drift under the unified neutral theory. A range of visualization, analytical, and simulation tools are provided in the package and these are presented with examples in the paper.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-08-31; Accepted 2007-06-15", xxtitle = "Introducing untb , an R Package For Simulating Ecological Drift Under the Unified Neutral Theory of Biodiversity", } @Article{Hughett:2007:CSA, author = "Paul Hughett", title = "Code Snippet: Accurate Computation of the {F-to-z} and t-to-z Transforms for Large Arguments", journal = j-J-STAT-SOFT, volume = "23", number = "CS-1", pages = "1--5", month = nov, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v023.c01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v23/c01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-06-28; Accepted 2007-10-27", } @Article{Hankin:2007:CSS, author = "Robin K. S. Hankin and Luke J. West", title = "Code Snippet: Set Partitions in {R}", journal = j-J-STAT-SOFT, volume = "23", number = "CS-2", pages = "1--12", month = dec, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v023.c02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v23/c02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-08-29; Accepted 2007-12-11", } @Article{Yaffee:2007:SRS, author = "Robert Alan Yaffee", title = "Software Review: {{\em Stata 10 (Time Series and Forecasting)}}", journal = j-J-STAT-SOFT, volume = "23", number = "SR-1", pages = "1--18", month = dec, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v023.s01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v23/s01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-12-12; Accepted 2007-12-12", } @Article{Brouste:2007:FGR, author = "Alexandre Brouste and Jacques Istas and Sophie Lambert-Lacroix", title = "On Fractional {Gaussian} Random Fields Simulations", journal = j-J-STAT-SOFT, volume = "23", number = "1", pages = "1--23", month = nov, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v023.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v23/i01", abstract = "To simulate Gaussian fields poses serious numerical problems: storage and computing time. The midpoint displacement method is often used for simulating the fractional Brownian fields because it is fast. We propose an effective and fast method, valid not only for fractional Brownian fields, but for any Gaussian fields. First, our method is compared with midpoint for fractional Brownian fields. Second, the performance of our method is illustrated by simulating several Gaussian fields. The software FieldSim is an R package developed in R and C and that implements the procedures on which this paper focuses.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-04-06; Accepted 2007-11-15", xxtitle = "On Fractional Gaussian Random Fields Simulations", } @Article{Hahsler:2007:TIT, author = "Michael Hahsler and Kurt Hornik", title = "{TSP} --- Infrastructure for the Traveling Salesperson Problem", journal = j-J-STAT-SOFT, volume = "23", number = "2", pages = "1--21", month = dec, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v023.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v23/i02", abstract = "The traveling salesperson (or, salesman) problem (TSP) is a well known and important combinatorial optimization problem. The goal is to find the shortest tour that visits each city in a given list exactly once and then returns to the starting city. Despite this simple problem statement, solving the TSP is difficult since it belongs to the class of NP-complete problems. The importance of the TSP arises besides from its theoretical appeal from the variety of its applications. Typical applications in operations research include vehicle routing, computer wiring, cutting wallpaper and job sequencing. The main application in statistics is combinatorial data analysis, e.g., reordering rows and columns of data matrices or identifying clusters. In this paper, we introduce the R package TSP which provides a basic infrastructure for handling and solving the traveling salesperson problem. The package features S3 classes for specifying a TSP and its (possibly optimal) solution as well as several heuristics to find good solutions. In addition, it provides an interface to Concorde, one of the best exact TSP solvers currently available.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-12-21; Accepted 2007-11-24", xxtitle = "{TSP} - Infrastructure for the Traveling Salesperson Problem", } @Article{Erdman:2007:BRP, author = "Chandra Erdman and John W. Emerson", title = "\pkg{bcp}: An {R} Package for Performing a {Bayesian} Analysis of Change Point Problems", journal = j-J-STAT-SOFT, volume = "23", number = "3", pages = "1--13", month = dec, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v023.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v23/i03", abstract = "Barry and Hartigan (1993) propose a Bayesian analysis for change point problems. We provide a brief summary of selected work on change point problems, both preceding and following Barry and Hartigan. We outline Barry and Hartigan's approach and offer a new R package, \pkg{pkgbcp} (Erdman and Emerson 2007), implementing their analysis. We discuss two frequentist alternatives to the Bayesian analysis, the recursive circular binary segmentation algorithm (Olshen and Venkatraman 2004) and the dynamic programming algorithm of (Bai and Perron 2003). We illustrate the application of \pkg{bcp} with economic and microarray data from the literature.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-01-02; Accepted 2007-11-27", xxtitle = "bcp : An R Package for Performing a Bayesian Analysis of Change Point Problems", } @Article{Henningsen:2007:SPE, author = "Arne Henningsen and Jeff D. Hamann", title = "\pkg{systemfit}: a Package for Estimating Systems of Simultaneous Equations in {R}", journal = j-J-STAT-SOFT, volume = "23", number = "4", pages = "1--40", month = dec, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v023.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v23/i04", abstract = "Many statistical analyses (e.g., in econometrics, biostatistics and experimental design) are based on models containing systems of structurally related equations. The \pkg{systemfit} package provides the capability to estimate systems of linear equations within the R programming environment. For instance, this package can be used for ``ordinary least squares'' (OLS), ``seemingly unrelated regression'' (SUR), and the instrumental variable (IV) methods ``two-stage least squares'' (2SLS) and ``three-stage least squares'' (3SLS), where SUR and 3SLS estimations can optionally be iterated. Furthermore, the \pkg{systemfit} package provides tools for several statistical tests. It has been tested on a variety of datasets and its reliability is demonstrated.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-03-15; Accepted 2007-10-24", xxtitle = "systemfit : A Package for Estimating Systems of Simultaneous Equations in R", } @Article{McLeod:2007:ALT, author = "A. Ian McLeod and Hao Yu and Zinovi L. Krougly", title = "Algorithms for Linear Time Series Analysis: With {R} Package", journal = j-J-STAT-SOFT, volume = "23", number = "5", pages = "1--26", month = dec, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v023.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v23/i05", abstract = "Our \pkg{ltsa} package implements the Durbin-Levinson and Trench algorithms and provides a general approach to the problems of fitting, forecasting and simulating linear time series models as well as fitting regression models with linear time series errors. For computational efficiency both algorithms are implemented in C and interfaced to R. Examples are given which illustrate the efficiency and accuracy of the algorithms. We provide a second package FGN which illustrates the use of the \pkg{ltsa} package with fractional Gaussian noise (FGN). It is hoped that the \pkg{ltsa} will provide a base for further time series software.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-10-14; Accepted 2007-11-11", remark = "Describes package \pkg{ltsa}.", xxtitle = "Algorithms for Linear Time Series Analysis: With R Package", } @Article{Hojsgaard:2007:IGG, author = "S{\o}ren H{\o}jsgaard and Steffen L. Lauritzen", title = "Inference in Graphical {Gaussian} Models with Edge and Vertex Symmetries with the \pkg{gRc} Package for {R}", journal = j-J-STAT-SOFT, volume = "23", number = "6", pages = "1--26", month = dec, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v023.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v23/i06", abstract = "In this paper we present the R package \pkg{gRc} for statistical inference in graphical Gaussian models in which symmetry restrictions have been imposed on the concentration or partial correlation matrix. The models are represented by coloured graphs where parameters associated with edges or vertices of same colour are restricted to being identical. We describe algorithms for maximum likelihood estimation and discuss model selection issues. The paper illustrates the practical use of the \pkg{gRc} package.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-09-20; Accepted 2007-09-06", xxtitle = "Inference in Graphical Gaussian Models with Edge and Vertex Symmetries with the {gRc} Package for R", } @Article{Stasinopoulos:2007:GAM, author = "D. Mikis Stasinopoulos and Robert A. Rigby", title = "Generalized Additive Models for Location Scale and Shape ({GAMLSS}) in {R}", journal = j-J-STAT-SOFT, volume = "23", number = "7", pages = "1--46", month = dec, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v023.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v23/i07", abstract = "GAMLSS is a general framework for fitting regression type models where the distribution of the response variable does not have to belong to the exponential family and includes highly skew and kurtotic continuous and discrete distribution. GAMLSS allows all the parameters of the distribution of the response variable to be modeled as linear/non-linear or smooth functions of the explanatory variables. This paper starts by defining the statistical framework of GAMLSS, then describes the current implementation of GAMLSS in R and finally gives four different data examples to demonstrate how GAMLSS can be used for statistical modelling.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-07-19; Accepted 2007-11-28", xxtitle = "Generalized Additive Models for Location Scale and Shape ({GAMLSS}) in R", } @Article{Zhao:2007:GGA, author = "Jing Hua Zhao", title = "\pkg{gap}: Genetic Analysis Package", journal = j-J-STAT-SOFT, volume = "23", number = "8", pages = "1--18", month = dec, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v023.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v23/i08", abstract = "A preliminary attempt at collecting tools and utilities for genetic data as an R package called \pkg{gap} is described. Genomewide association is then described as a specific example, linking the work of Risch and Merikangas (1996), Long and Langley (1997) for family-based and population-based studies, and the counterpart for case-cohort design established by Cai and Zeng (2004). Analysis of staged design as outlined by Skol et al. (2006) and associate methods are discussed. The package is flexible, customizable, and should prove useful to researchers especially in its application to genome-wide association studies.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-01-03; Accepted 2007-06-08", xxtitle = "gap : Genetic Analysis Package", } @Article{Smith:2007:WSM, author = "Michael K. Smith and Helen Richardson", title = "{WinBUGSio}: a {SAS} Macro for the Remote Execution of {WinBUGS}", journal = j-J-STAT-SOFT, volume = "23", number = "9", pages = "1--10", month = dec, year = "2007", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v023.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v23/i09", abstract = "This is a macro which facilitates remote execution of WinBUGS from within SAS. The macro pre-processes data for WinBUGS, writes the WinBUGS batch-script, executes this script and reads in output statistics from the WinBUGS log-file back into SAS native format. The user specifies the input and output file names and directory path as well as the statistics to be monitored in WinBUGS. The code works best for a model that has already been set up and checked for convergence diagnostics within WinBUGS. An obvious extension of the use of this macro is for running simulations where the input and output files all have the same name but all that differs between simulation iterations is the input dataset. The functionality and syntax of the macro call are described in this paper and illustrated using a simple linear regression model.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2005-12-16; Accepted 2007-09-07", xxtitle = "{WinBUGSio} : A {SAS} Macro for the Remote Execution of {WinBUGS}", } @Article{Crookston:2008:YRP, author = "Nicholas L. Crookston and Andrew O. Finley", title = "\pkg{yaImpute}: An {R} Package for {kNN} Imputation", journal = j-J-STAT-SOFT, volume = "23", number = "10", pages = "1--16", month = jan, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v023.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v23/i10", abstract = "This article introduces \pkg{yaImpute}, an R package for nearest neighbor search and imputation. Although nearest neighbor imputation is used in a host of disciplines, the methods implemented in the \pkg{yaImpute} package are tailored to imputation-based forest attribute estimation and mapping. The impetus to writing the \pkg{yaImpute} is a growing interest in nearest neighbor imputation methods for spatially explicit forest inventory, and a need within this research community for software that facilitates comparison among different nearest neighbor search algorithms and subsequent imputation techniques. \pkg{yaImpute} provides directives for defining the search space, subsequent distance calculation, and imputation rules for a given number of nearest neighbors. Further, the package offers a suite of diagnostics for comparison among results generated from different imputation analyses and a set of functions for mapping imputation results.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-06-20; Accepted 2007-10-10", xxtitle = "{yaImpute} : An R Package for k {NN} Imputation", } @Article{Freeman:2008:PRP, author = "Elizabeth A. Freeman and Gretchen Moisen", title = "\pkg{PresenceAbsence}: An {R} Package for Presence Absence Analysis", journal = j-J-STAT-SOFT, volume = "23", number = "11", pages = "1--31", month = jan, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v023.i11", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v23/i11", abstract = "The \pkg{PresenceAbsence} package for R provides a set of functions useful when evaluating the results of presence-absence analysis, for example, models of species distribution or the analysis of diagnostic tests. The package provides a toolkit for selecting the optimal threshold for translating a probability surface into presence-absence maps specifically tailored to their intended use. The package includes functions for calculating threshold dependent measures such as confusion matrices, percent correctly classified (PCC), sensitivity, specificity, and Kappa, and produces plots of each measure as the threshold is varied. It also includes functions to plot the Receiver Operator Characteristic (ROC) curve and calculates the associated area under the curve (AUC), a threshold independent measure of model quality. Finally, the package computes optimal thresholds by multiple criteria, and plots these optimized thresholds on the graphs.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-04-19; Accepted 2008-01-08", xxtitle = "{PresenceAbsence} : An R Package for Presence Absence Analysis", } @Article{Gonzalez:2008:CRP, author = "Ignacio Gonz{\'a}lez and S{\'e}bastien D{\'e}jean and Pascal G. P. Martin and Alain Baccini", title = "\pkg{CCA}: An {R} Package to Extend Canonical Correlation Analysis", journal = j-J-STAT-SOFT, volume = "23", number = "12", pages = "1--14", month = jan, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v023.i12", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v23/i12", abstract = "Canonical correlations analysis (CCA) is an exploratory statistical method to highlight correlations between two data sets acquired on the same experimental units. The {\tt cancor()} function in R (R Development Core Team 2007) performs the core of computations but further work was required to provide the user with additional tools to facilitate the interpretation of the results. We implemented an R package, \pkg{CCA}, freely available from the Comprehensive R Archive Network (CRAN, \path=http://CRAN.R-project.org/=), to develop numerical and graphical outputs and to enable the user to handle missing values. The \pkg{CCA} package also includes a regularized version of \pkg{CCA} to deal with data sets with more variables than units. Illustrations are given through the analysis of a data set coming from a nutrigenomic study in the mouse.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-03-20; Accepted 2007-12-04", xxtitle = "{CCA} : An R Package to Extend Canonical Correlation Analysis", } @Article{Handcock:2008:SST, author = "Mark S. Handcock and David R. Hunter and Carter T. Butts and Steven M. Goodreau and Martina Morris", title = "\pkg{statnet}: Software Tools for the Representation, Visualization, Analysis and Simulation of Network Data", journal = j-J-STAT-SOFT, volume = "24", number = "1", pages = "1--11", month = may, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v024.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v24/i01", abstract = "\pkg{statnet} is a suite of software packages for statistical network analysis. The packages implement recent advances in network modeling based on exponential-family random graph models (ERGM). The components of the package provide a comprehensive framework for ERGM-based network modeling, including tools for model estimation, model evaluation, model-based network simulation, and network visualization. This broad functionality is powered by a central Markov chain Monte Carlo (MCMC) algorithm. The coding is optimized for speed and robustness.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-06-01; Accepted 2007-12-25", xxtitle = "statnet : Software Tools for the Representation, Visualization, Analysis and Simulation of Network Data", } @Article{Butts:2008:NPM, author = "Carter T. Butts", title = "\pkg{network}: a Package for Managing Relational Data in {R}", journal = j-J-STAT-SOFT, volume = "24", number = "2", pages = "1--36", month = may, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v024.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v24/i02", abstract = "Effective memory structures for relational data within R must be capable of representing a wide range of data while keeping overhead to a minimum. The \pkg{network} package provides a class which may be used for encoding complex relational structures composed a vertex set together with any combination of undirected/directed, valued/unvalued, dyadic/hyper, and single/multiple edges; storage requirements are on the order of the number of edges involved. Some simple constructor, interface, and visualization functions are provided, as well as a set of operators to facilitate employment by end users. The package also supports a C-language API, which allows developers to work directly with \pkg{network} objects within backend code.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-06-01; Accepted 2007-12-25", xxtitle = "network : A Package for Managing Relational Data in R", } @Article{Hunter:2008:EPF, author = "David R. Hunter and Mark S. Handcock and Carter T. Butts and Steven M. Goodreau and Martina Morris", title = "\pkg{ergm}: a Package to Fit, Simulate and Diagnose Exponential-Family Models for Networks", journal = j-J-STAT-SOFT, volume = "24", number = "3", pages = "1--29", month = may, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v024.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v24/i03", abstract = "We describe some of the capabilities of the \pkg{ergm} package and the statistical theory underlying it. This package contains tools for accomplishing three important, and inter-related, tasks involving exponential-family random graph models (ERGMs): estimation, simulation, and goodness of fit. More precisely, \pkg{ergm} has the capability of approximating a maximum likelihood estimator for an ERGM given a network data set; simulating new network data sets from a fitted ERGM using Markov chain Monte Carlo; and assessing how well a fitted ERGM does at capturing characteristics of a particular network data set.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-06-01; Accepted 2007-12-25", xxtitle = "ergm : A Package to Fit, Simulate and Diagnose Exponential-Family Models for Networks", } @Article{Morris:2008:SEF, author = "Martina Morris and Mark S. Handcock and David R. Hunter", title = "Specification of Exponential-Family Random Graph Models: Terms and Computational Aspects", journal = j-J-STAT-SOFT, volume = "24", number = "4", pages = "1--24", month = may, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v024.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v24/i04", abstract = "Exponential-family random graph models (ERGMs) represent the processes that govern the formation of links in networks through the terms selected by the user. The terms specify network statistics that are sufficient to represent the probability distribution over the space of networks of that size. Many classes of statistics can be used. In this article we describe the classes of statistics that are currently available in the \pkg{ergm} package. We also describe means for controlling the Markov chain Monte Carlo (MCMC) algorithm that the package uses for estimation. These controls affect either the proposal distribution on the sample space used by the underlying Metropolis--Hastings algorithm or the constraints on the sample space itself. Finally, we describe various other arguments to core functions of the \pkg{ergm} package.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-06-01; Accepted 2007-12-25", xxtitle = "Specification of Exponential-Family Random Graph Models: Terms and Computational Aspects", } @Article{Krivitsky:2008:FLC, author = "Pavel N. Krivitsky and Mark S. Handcock", title = "Fitting Latent Cluster Models for Networks with \pkg{latentnet}", journal = j-J-STAT-SOFT, volume = "24", number = "5", pages = "1--23", month = may, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v024.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v24/i05", abstract = "\pkg{latentnet} is a package to fit and evaluate statistical latent position and cluster models for networks. Hoff, Raftery, and Handcock (2002) suggested an approach to modeling networks based on positing the existence of a latent space of characteristics of the actors. Relationships form as a function of distances between these characteristics as well as functions of observed dyadic level covariates. In \pkg{latentnet} social distances are represented in a Euclidean space. It also includes a variant of the extension of the latent position model to allow for clustering of the positions developed in Handcock, Raftery, and Tantrum (2007).\par The package implements Bayesian inference for the models based on an Markov chain Monte Carlo algorithm. It can also compute maximum likelihood estimates for the latent position model and a two-stage maximum likelihood method for the latent position cluster model. For latent position cluster models, the package provides a Bayesian way of assessing how many groups there are, and thus whether or not there is any clustering (since if the preferred number of groups is 1, there is little evidence for clustering). It also estimates which cluster each actor belongs to. These estimates are probabilistic, and provide the probability of each actor belonging to each cluster. It computes four types of point estimates for the coefficients and positions: maximum likelihood estimate, posterior mean, posterior mode and the estimator which minimizes Kullback--Leibler divergence from the posterior. You can assess the goodness-of-fit of the model via posterior predictive checks. It has a function to simulate networks from a latent position or latent position cluster model.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-06-01; Accepted 2007-12-25", xxtitle = "Fitting Position Latent Cluster Models for Social Networks with latentnet", } @Article{Butts:2008:SNA, author = "Carter T. Butts", title = "Social Network Analysis with \pkg{sna}", journal = j-J-STAT-SOFT, volume = "24", number = "6", pages = "1--51", month = may, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v024.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v24/i06", abstract = "Modern social network analysis---the analysis of relational data arising from social systems---is a computationally intensive area of research. Here, we provide an overview of a software package which provides support for a range of network analytic functionality within the R statistical computing environment. General categories of currently supported functionality are described, and brief examples of package syntax and usage are shown.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-06-01; Accepted 2007-12-25", xxtitle = "Social Network Analysis with sna", } @Article{Bender-deMol:2008:PPM, author = "Skye Bender-deMoll and Martina Morris and James Moody", title = "Prototype Packages for Managing and Animating Longitudinal Network Data: \pkg{dynamicnetwork} and \pkg{rSoNIA}", journal = j-J-STAT-SOFT, volume = "24", number = "7", pages = "1--36", month = may, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v024.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v24/i07", abstract = "Work with longitudinal network survey data and the dynamic network outputs of the \pkg{statnet} ERGMs has demonstrated the need for consistent frameworks and data structures for expressing, storing, and manipulating information about networks that change in time. Motivated by our requirements for exchanging data among researchers and various analysis and visualization processes, we have created an R package \pkg{dynamicnetwork} that builds upon previous work in the network, \pkg{statnet} and \pkg{sna} packages and provides a limited functional implementation. This paper discusses design issues and considerations, describes classes and forms of dynamic data, and works through several examples to demonstrate the utility of the package. The functionality of the \pkg{rSoNIA} package that uses \pkg{dynamicnetwork} to exchange data with the Social Network Image Animator (SoNIA) software to create animated movies of changing networks from within R is also demonstrated.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-06-01; Accepted 2007-12-25", xxtitle = "Prototype Packages for Managing and Animating Longitudinal Network Data: dynamicnetwork and {rSoNIA}", } @Article{Admiraal:2008:NPS, author = "Ryan Admiraal and Mark S. Handcock", title = "\pkg{networksis}: a Package to Simulate Bipartite Graphs with Fixed Marginals Through Sequential Importance Sampling", journal = j-J-STAT-SOFT, volume = "24", number = "8", pages = "1--21", month = may, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v024.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v24/i08", abstract = "The ability to simulate graphs with given properties is important for the analysis of social networks. Sequential importance sampling has been shown to be particularly effective in estimating the number of graphs adhering to fixed marginals and in estimating the null distribution of graph statistics. This paper describes the \pkg{networksis} package for R and how its \pkg{simulate} and \pkg{simulate\_sis} functions can be used to address both of these tasks as well as generate initial graphs for Markov chain Monte Carlo simulations.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-01-30; Accepted 2008-03-25", xxtitle = "networksis : A Package to Simulate Bipartite Graphs with Fixed Marginals Through Sequential Importance Sampling", } @Article{Goodreau:2008:ST, author = "Steven M. Goodreau and Mark S. Handcock and David R. Hunter and Carter T. Butts and Martina Morris", title = "A \pkg{statnet} Tutorial", journal = j-J-STAT-SOFT, volume = "24", number = "9", pages = "1--26", month = may, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v024.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:16 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v24/i09", abstract = "The \pkg{statnet} suite of R packages contains a wide range of functionality for the statistical analysis of social networks, including the implementation of exponential-family random graph (ERG) models. In this paper we illustrate some of the functionality of \pkg{statnet} through a tutorial analysis of a friendship network of 1,461 adolescents.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-06-01; Accepted 2007-12-25", xxtitle = "A statnet Tutorial", } @Article{Mair:2008:BRB, author = "Patrick Mair", title = "Book Review: {{\booktitle{Data Mining the Web: Uncovering Patterns in Web Content, Structure, and Usage}}}", journal = j-J-STAT-SOFT, volume = "25", number = "BR-1", pages = "1--3", month = may, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v025.b01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v25/b01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-04-30; Accepted 2008-04-30", } @Article{Grothendieck:2008:BRB, author = "Gabor Grothendieck", title = "Book Review: {{\booktitle{\pkg{lattice}: Multivariate Data Visualization with R}}, Deepayan Sarkar, Springer-Verlag, New York, NY, 2008. ISBN 978-0-387-75968-5. 268 pp. USD 54.95 (P). \url{http://dsarkar.fhcrc.org/lattice/}}", journal = j-J-STAT-SOFT, volume = "25", number = "BR-2", pages = "1--3", month = may, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v025.b02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v25/b02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-05-08; Accepted 2008-05-08", } @Article{deLeeuw:2008:BRB, author = "Jan de Leeuw", title = "Book Review: {{\booktitle{Matrix Algebra, A Matrix Handbook for Statisticians}}}", journal = j-J-STAT-SOFT, volume = "25", number = "BR-3", pages = "1--3", month = may, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v025.b03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v25/b03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-05-27; Accepted 2008-05-27", } @Article{Peng:2008:CSM, author = "Roger Peng", title = "Code Snippet: a Method for Visualizing Multivariate Time Series Data", journal = j-J-STAT-SOFT, volume = "25", number = "CS-1", pages = "1--17", month = mar, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v025.c01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v25/c01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-01-15; Accepted 2008-02-25", } @Article{Rosenblad:2008:SRG, author = "Andreas Rosenblad", title = "Software Review: {{\em gret1 1.7.3}}", journal = j-J-STAT-SOFT, volume = "25", number = "SR-1", pages = "1--14", month = mar, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v025.s01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v25/s01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-03-26; Accepted 2008-03-31", } @Article{Le:2008:FRP, author = "S{\'e}bastien L{\^e} and Julie Josse and Fran{\c{c}}ois Husson", title = "\pkg{FactoMineR}: An {R} Package for Multivariate Analysis", journal = j-J-STAT-SOFT, volume = "25", number = "1", pages = "1--18", month = mar, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v025.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v25/i01", abstract = "In this article, we present \pkg{FactoMineR} an R package dedicated to multivariate data analysis. The main features of this package is the possibility to take into account different types of variables (quantitative or categorical), different types of structure on the data (a partition on the variables, a hierarchy on the variables, a partition on the individuals) and finally supplementary information (supplementary individuals and variables). Moreover, the dimensions issued from the different exploratory data analyses can be automatically described by quantitative and/or categorical variables. Numerous graphics are also available with various options. Finally, a graphical user interface is implemented within the \pkg{Rcmdr} environment in order to propose an user friendly package.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-04-05; Accepted 2008-01-09", xxtitle = "{FactoMineR} : An R Package for Multivariate Analysis", } @Article{Knoblauch:2008:MML, author = "Kenneth Knoblauch and Laurence T. Maloney", title = "{MLDS}: Maximum Likelihood Difference Scaling in {R}", journal = j-J-STAT-SOFT, volume = "25", number = "2", pages = "1--26", month = mar, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v025.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v25/i02", abstract = "The \pkg{MLDS} package in the R programming language can be used to estimate perceptual scales based on the results of psychophysical experiments using the method of difference scaling. In a difference scaling experiment, observers compare two supra-threshold differences (a,b) and (c,d) on each trial. The approach is based on a stochastic model of how the observer decides which perceptual difference (or interval) (a,b) or (c,d) is greater, and the parameters of the model are estimated using a maximum likelihood criterion. We also propose a method to test the model by evaluating the self-consistency of the estimated scale. The package includes an example in which an observer judges the differences in correlation between scatterplots. The example may be readily adapted to estimate perceptual scales for arbitrary physical continua.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-04-17; Accepted 2008-01-09", xxtitle = "{MLDS} : Maximum Likelihood Difference Scaling in R", } @Article{Hahsler:2008:GTO, author = "Michael Hahsler and Kurt Hornik and Christian Buchta", title = "Getting Things in Order: An Introduction to the {R} Package \pkg{seriation}", journal = j-J-STAT-SOFT, volume = "25", number = "3", pages = "1--34", month = mar, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v025.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v25/i03", abstract = "Seriation, i.e., finding a suitable linear order for a set of objects given data and a loss or merit function, is a basic problem in data analysis. Caused by the problem's combinatorial nature, it is hard to solve for all but very small sets. Nevertheless, both exact solution methods and heuristics are available. In this paper we present the package \pkg{seriation} which provides an infrastructure for seriation with R. The infrastructure comprises data structures to represent linear orders as permutation vectors, a wide array of seriation methods using a consistent interface, a method to calculate the value of various loss and merit functions, and several visualization techniques which build on \pkg{seriation}. To illustrate how easily the package can be applied for a variety of applications, a comprehensive collection of examples is presented.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-09-11; Accepted 2008-02-05", xxtitle = "Getting Things in Order: An Introduction to the R Package seriation", } @Article{Brock:2008:CRP, author = "Guy Brock and Vasyl Pihur and Susmita Datta and Somnath Datta", title = "\pkg{clValid}: An {R} Package for Cluster Validation", journal = j-J-STAT-SOFT, volume = "25", number = "4", pages = "1--22", month = mar, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v025.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v25/i04", abstract = "The R package \pkg{clValid} contains functions for validating the results of a clustering analysis. There are three main types of cluster validation measures available, ``internal'', ``stability'', and ``biological''. The user can choose from nine clustering algorithms in existing R packages, including hierarchical, K-means, self-organizing maps (SOM), and model-based clustering. In addition, we provide a function to perform the self-organizing tree algorithm (SOTA) method of clustering. Any combination of validation measures and clustering methods can be requested in a single function call. This allows the user to simultaneously evaluate several clustering algorithms while varying the number of clusters, to help determine the most appropriate method and number of clusters for the dataset of interest. Additionally, the package can automatically make use of the biological information contained in the Gene Ontology (GO) database to calculate the biological validation measures, via the annotation packages available in Bioconductor. The function returns an object of S4 class ``\pkg{clValid}'', which has summary, plot, print, and additional methods which allow the user to display the optimal validation scores and extract clustering results.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-04-03; Accepted 2008-01-22", xxtitle = "{clValid} : An R Package for Cluster Validation", } @Article{Feinerer:2008:TMI, author = "Ingo Feinerer and Kurt Hornik and David Meyer", title = "Text Mining Infrastructure in {R}", journal = j-J-STAT-SOFT, volume = "25", number = "5", pages = "1--54", month = mar, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v025.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v25/i05", abstract = "During the last decade text mining has become a widely used discipline utilizing statistical and machine learning methods. We present the \pkg{tm} package which provides a framework for text mining applications within R. We give a survey on text mining facilities in R and explain how typical application tasks can be carried out using our framework. We present techniques for count-based analysis methods, text clustering, text classification and string kernels.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-09-05; Accepted 2008-02-10", xxtitle = "Text Mining Infrastructure in R", } @Article{Johnson:2008:SIS, author = "Kjell Johnson and Abhyuday Mandal and Tan Ding", title = "Software for Implementing the Sequential Elimination of Level Combinations Algorithm", journal = j-J-STAT-SOFT, volume = "25", number = "6", pages = "1--13", month = mar, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v025.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v25/i06", abstract = "Genetic algorithms (GAs) are a popular technology to search for an optimum in a large search space. Using new concepts of forbidden array and weighted mutation, Mandal, Wu, and Johnson (2006) used elements of GAs to introduce a new global optimization technique called sequential elimination of level combinations (SELC), that efficiently finds optima. A SAS macro, and MATLAB and R functions are developed to implement the SELC algorithm.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-08-23; Accepted 2008-02-24", xxtitle = "Software for Implementing the Sequential Elimination of Level Combinations Algorithm", } @Article{Dutang:2008:ARP, author = "Christophe Dutang and Vincent Goulet and Mathieu Pigeon", title = "\pkg{actuar}: An {R} Package for Actuarial Science", journal = j-J-STAT-SOFT, volume = "25", number = "7", pages = "1--37", month = mar, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v025.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v25/i07", abstract = "\pkg{actuar} is a package providing additional Actuarial Science functionality to the R statistical system. The project was launched in 2005 and the package is available on the Comprehensive R Archive Network since February 2006. The current version of the package contains functions for use in the fields of loss distributions modeling, risk theory (including ruin theory), simulation of compound hierarchical models and credibility theory. This paper presents in detail but with few technical terms the most recent version of the package.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-11-16; Accepted 2008-02-14", xxtitle = "actuar : An R Package for Actuarial Science", } @Article{Sheng:2008:MPMa, author = "Yanyan Sheng", title = "{Markov} Chain {Monte Carlo} Estimation of Normal {Ogive} {IRT} Models in {MATLAB}", journal = j-J-STAT-SOFT, volume = "25", number = "8", pages = "1--15", month = apr, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v025.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v25/i08", abstract = "Modeling the interaction between persons and items at the item level for binary response data, item response theory (IRT) models have been found useful in a wide variety of applications in various fields. This paper provides the requisite information and description of software that implements the Gibbs sampling procedures for the one-, two- and three-parameter normal ogive models. The software developed is written in the MATLAB package IRTuno. The package is flexible enough to allow a user the choice to simulate binary response data, set the number of total or burn-in iterations, specify starting values or prior distributions for model parameters, check convergence of the Markov chain, and obtain Bayesian fit statistics. Illustrative examples are provided to demonstrate and validate the use of the software package. The m-file v25i08.m is also provided as a guide for the user of the MCMC algorithms with the three dichotomous IRT models.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-09-05; Accepted 2008-03-27", xxtitle = "Markov Chain Monte Carlo Estimation of Normal Ogive {IRT} Models in {MATLAB}", } @Article{Lawrence:2008:EME, author = "Michael Lawrence and Dianne Cook and Eun-Kyung Lee and Heather Babka and Eve Syrkin Wurtele", title = "\pkg{explorase}: Multivariate Exploratory Analysis and Visualization for Systems Biology", journal = j-J-STAT-SOFT, volume = "25", number = "9", pages = "1--23", month = apr, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v025.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v25/i09", abstract = "The datasets being produced by high-throughput biological experiments, such as microarrays, have forced biologists to turn to sophisticated statistical analysis and visualization tools in order to understand their data. We address the particular need for an open-source exploratory data analysis tool that applies numerical methods in coordination with interactive graphics to the analysis of experimental data. The software package, known as \pkg{explorase}, provides a graphical user interface (GUI) on top of the R platform for statistical computing and the GGobi software for multivariate interactive graphics. The GUI is designed for use by biologists, many of whom are unfamiliar with the R language. It displays metadata about experimental design and biological entities in tables that are sortable and filterable. There are menu shortcuts to the analysis methods implemented in R, including graphical interfaces to linear modeling tools. The GUI is linked to data plots in GGobi through a brush tool that simultaneously colors rows in the entity information table and points in the GGobi plots.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-01-31; Accepted 2008-03-29", xxtitle = "explorase : Multivariate Exploratory Analysis and Visualization for Systems Biology", } @Article{Smith:2008:UGM, author = "Brian J. Smith and Jun Yan and Mary Kathryn Cowles", title = "Unified Geostatistical Modeling for Data Fusion and Spatial Heteroskedasticity with {R} Package \pkg{ramps}", journal = j-J-STAT-SOFT, volume = "25", number = "10", pages = "1--21", month = apr, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v025.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v25/i10", abstract = "This article illustrates usage of the \pkg{ramps} R package, which implements the reparameterized and marginalized posterior sampling (RAMPS) algorithm for complex Bayesian geostatistical models. The RAMPS methodology allows joint modeling of areal and point-source data arising from the same underlying spatial process. A reparametrization of variance parameters facilitates slice sampling based on simplexes, which can be useful in general when multiple variances are present. Prediction at arbitrary points can be made, which is critical in applications where maps are needed. Our implementation takes advantage of sparse matrix operations in the Matrix package and can provide substantial savings in computing time for large datasets. A user-friendly interface, similar to the \pkg{nlme} mixed effects models package, enables users to analyze datasets with little programming effort. Support is provided for numerous spatial and spatiotemporal correlation structures, user-defined correlation structures, and non-spatial random effects. The package features are illustrated via a synthetic dataset of spatially correlated observation distributed across the state of Iowa, USA.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-12-17; Accepted 2008-03-26", xxtitle = "Unified Geostatistical Modeling for Data Fusion and Spatial Heteroskedasticity with R Package ramps", } @Article{Iacus:2008:IMF, author = "Stefano M. Iacus and Giuseppe Porro", title = "Invariant and Metric Free Proximities for Data Matching: An {R} Package", journal = j-J-STAT-SOFT, volume = "25", number = "11", pages = "1--22", month = apr, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v025.i11", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v25/i11", abstract = "Data matching is a typical statistical problem in non experimental and/or observational studies or, more generally, in cross-sectional studies in which one or more data sets are to be compared. Several methods are available in the literature, most of which based on a particular metric or on statistical models, either parametric or nonparametric. In this paper we present two methods to calculate a proximity which have the property of being invariant under monotonic transformations. These methods require at most the notion of ordering. An open-source software in the form of a R package is also presented.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-03-19; Accepted 2008-03-31", remark = "Describes package \pkg{rrp}.", xxtitle = "Invariant and Metric Free Proximities for Data Matching: An R Package", } @Article{Pineda-Krch:2008:GIG, author = "Mario Pineda-Krch", title = "\pkg{GillespieSSA}: Implementing the {Gillespie} Stochastic Simulation Algorithm in {R}", journal = j-J-STAT-SOFT, volume = "25", number = "12", pages = "1--18", month = apr, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v025.i12", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v25/i12", abstract = "The deterministic dynamics of populations in continuous time are traditionally described using coupled, first-order ordinary differential equations. While this approach is accurate for large systems, it is often inadequate for small systems where key species may be present in small numbers or where key reactions occur at a low rate. The Gillespie stochastic simulation algorithm (SSA) is a procedure for generating time-evolution trajectories of finite populations in continuous time and has become the standard algorithm for these types of stochastic models. This article presents a simple-to-use and flexible framework for implementing the SSA using the high-level statistical computing language R and the package \pkg{GillespieSSA}. Using three ecological models as examples (logistic growth, Rosenzweig-MacArthur predator-prey model, and Kermack-McKendrick SIRS metapopulation model), this paper shows how a deterministic model can be formulated as a finite-population stochastic model within the framework of SSA theory and how it can be implemented in R. Simulations of the stochastic models are performed using four different SSA Monte Carlo methods: one exact method (Gillespie's direct method); and three approximate methods (explicit, binomial, and optimized tau-leap methods). Comparison of simulation results confirms that while the time-evolution trajectories obtained from the different SSA methods are indistinguishable, the approximate methods are up to four orders of magnitude faster than the exact methods.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-10-19; Accepted 2008-02-01", xxtitle = "{GillespieSSA} : Implementing the Stochastic Simulation Algorithm in R", } @Article{Lawson:2008:SMA, author = "John Lawson", title = "{SAS} Macros for Analysis of Unreplicated $ 2^k $ and $ 2^{k - p} $ Designs with a Possible Outlier", journal = j-J-STAT-SOFT, volume = "25", number = "13", pages = "1--17", month = may, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v025.i13", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v25/i13", abstract = "Many techniques have been proposed for judging the significance of effects in unreplicated $ 2^k $ and $ 2^{k - p} $ designs. However, relatively few methods have been proposed for analyzing unreplicated designs with possible outliers. Outliers can be a major impediment to valid interpretation of data from unreplicated designs. This paper presents SAS macros which automate a manual method for detecting an outlier and performing an analysis of data from an unreplicated $ 2^k $ or $ 2^{k - p} $ design when an outlier is present. This method was originally suggested by Cuthbert Daniel and is based on the normal or half normal plot of effects. This automated version was shown in simulation studies to perform better than other procedures proposed to do the same thing.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-09-17; Accepted 2008-03-22", xxtitle = "{SAS} Macros for Analysis of Unreplicated 2 k and 2 k - p Designs with a Possible Outlier", } @Article{Ratcliffe:2008:GMT, author = "Sarah J. Ratcliffe and Justine Shults", title = "{GEEQBOX}: a {MATLAB} Toolbox for Generalized Estimating Equations and Quasi-Least Squares", journal = j-J-STAT-SOFT, volume = "25", number = "14", pages = "1--14", month = may, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v025.i14", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v25/i14", abstract = "The GEEQBOX toolbox analyzes correlated data via the method of generalized estimating equations (GEE) and quasi-least squares (QLS), an approach based on GEE that overcomes some limitations of GEE that have been noted in the literature. GEEQBOX is currently able to handle correlated data that follows a normal, Bernoulli or Poisson distribution, and that is assumed to have an AR(1), Markov, tri-diagonal, equicorrelated, unstructured or working independence correlation structure. This toolbox is for use with MATLAB.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-04-13; Accepted 2008-03-28", xxtitle = "{GEEQBOX} : A {MATLAB} Toolbox for Generalized Estimating Equations and Quasi-Least Squares", } @Article{Wickham:2008:BRBa, author = "Hadley Wickham", title = "Book Review: {{\booktitle{Data Manipulation with R}}}", journal = j-J-STAT-SOFT, volume = "26", number = "BR-1", pages = "1--2", month = jun, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v026.b01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v26/b01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-06-16; Accepted 2008-06-16", } @Article{Wallstrom:2008:IBA, author = "Garrick Wallstrom and Jeffrey Liebner and Robert E. Kass", title = "An Implementation of {Bayesian} Adaptive Regression Splines ({BARS}) in {C} with {S} and {R} Wrappers", journal = j-J-STAT-SOFT, volume = "26", number = "1", pages = "1--21", month = jun, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v026.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v26/i01", abstract = ">BARS (DiMatteo, Genovese, and Kass 2001) uses the powerful reversible-jump MCMC engine to perform spline-based generalized nonparametric regression. It has been shown to work well in terms of having small mean-squared error in many examples (smaller than known competitors), as well as producing visually-appealing fits that are smooth (filtering out high-frequency noise) while adapting to sudden changes (retaining high-frequency signal). However, BARS is computationally intensive. The original implementation in \pkg{S} was too slow to be practical in certain situations, and was found to handle some data sets incorrectly. We have implemented BARS in \pkg{C} for the normal and Poisson cases, the latter being important in neurophysiological and other point-process applications. The \pkg{C} implementation includes all needed subroutines for fitting Poisson regression, manipulating B-splines (using code created by Bates and Venables), and finding starting values for Poisson regression (using code for density estimation created by Kooperberg). The code utilizes only freely-available external libraries ({\bf LAPACK} and {\bf BLAS}) and is otherwise self-contained. We have also provided wrappers so that BARS can be used easily within \pkg{S} or \pkg{R}.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2004-06-25; Accepted 2007-02-20", xxtitle = "An Implementation of Bayesian Adaptive Regression Splines ({BARS}) in C with S and R Wrappers", } @Article{Brown:2008:RAM, author = "J. Randall Brown and Milton E. Harvey", title = "Rational Arithmetic {Mathematica} Functions to Evaluate the Two-Sided One Sample {K-S} Cumulative Sampling Distribution", journal = j-J-STAT-SOFT, volume = "26", number = "2", pages = "1--40", month = jun, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v026.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/mathematica.bib", URL = "http://www.jstatsoft.org/v26/i02", abstract = "One of the most widely used goodness-of-fit tests is the two-sided one sample Kolmogorov--Smirnov (K-S) test which has been implemented by many computer statistical software packages. To calculate a two-sided p value (evaluate the cumulative sampling distribution), these packages use various methods including recursion formulae, limiting distributions, and approximations of unknown accuracy developed over thirty years ago. Based on an extensive literature search for the two-sided one sample K-S test, this paper identifies an exact formula for sample sizes up to 31, six recursion formulae, and one matrix formula that can be used to calculate a p value. To ensure accurate calculation by avoiding catastrophic cancellation and eliminating rounding error, each of these formulae is implemented in rational arithmetic. For the six recursion formulae and the matrix formula, computational experience for sample sizes up to 500 shows that computational times are increasing functions of both the sample size and the number of digits in the numerator and denominator integers of the rational number test statistic. The computational times of the seven formulae vary immensely but the Durbin recursion formula is almost always the fastest. Linear search is used to calculate the inverse of the cumulative sampling distribution (find the confidence interval half-width) and tables of calculated half-widths are presented for sample sizes up to 500. Using calculated half-widths as input, computational times for the fastest formula, the Durbin recursion formula, are given for sample sizes up to two thousand.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-05-23; Accepted 2007-06-25", xxtitle = "Rational Arithmetic Mathematica Functions to Evaluate the Two-Sided One Sample K-S Cumulative Sampling Distribution", } @Article{Brown:2008:APM, author = "J. Randall Brown and Milton E. Harvey", title = "Arbitrary Precision {Mathematica} Functions to Evaluate the One-Sided One Sample {K-S} Cumulative Sampling Distribution", journal = j-J-STAT-SOFT, volume = "26", number = "3", pages = "1--55", month = jun, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v026.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/mathematica.bib", URL = "http://www.jstatsoft.org/v26/i03", abstract = "Efficient rational arithmetic methods that can exactly evaluate the cumulative sampling distribution of the one-sided one sample Kolmogorov--Smirnov (K-S) test have been developed by Brown and Harvey (2007) for sample sizes n up to fifty thousand. This paper implements in arbitrary precision the same 13 formulae to evaluate the one-sided one sample K-S cumulative sampling distribution. Computational experience identifies the fastest implementation which is then used to calculate confidence interval bandwidths and p values for sample sizes up to ten million.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-09-03; Accepted 2008-04-03", xxtitle = "Arbitrary Precision Mathematica Functions to Evaluate the One-Sided One Sample K-S Cumulative Sampling Distribution", } @Article{Leiva:2008:RPG, author = "V{\'\i}ctor Leiva and Hugo Hern{\'a}ndez and Antonio Sanhueza", title = "An {R} Package for a General Class of Inverse {Gaussian} Distributions", journal = j-J-STAT-SOFT, volume = "26", number = "4", pages = "1--21", month = jun, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v026.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v26/i04", abstract = "The inverse Gaussian distribution is a positively skewed probability model that has received great attention in the last 20 years. Recently, a family that generalizes this model called inverse Gaussian type distributions has been developed. The new R package named \pkg{ig} has been designed to analyze data from inverse Gaussian type distributions. This package contains basic probabilistic functions, lifetime indicators and a random number generator from this model. Also, parameter estimates and diagnostics analysis can be obtained using likelihood methods by means of this package. In addition, goodness-of-fit methods are implemented in order to detect the suitability of the model to the data. The capabilities and features of the \pkg{ig} package are illustrated using simulated and real data sets. Furthermore, some new results related to the inverse Gaussian type distribution are also obtained. Moreover, a simulation study is conducted for evaluating the estimation method implemented in the \pkg{ig} package.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-09-13; Accepted 2008-03-31", remark = "Describes package \pkg{ig}.", xxtitle = "An R Package for a General Class of Inverse Gaussian Distributions", } @Article{Wheeler:2008:MAS, author = "Matthew W. Wheeler and A. John Bailer", title = "Model Averaging Software for Dichotomous Dose Response Risk Estimation", journal = j-J-STAT-SOFT, volume = "26", number = "5", pages = "1--15", month = jun, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v026.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri Jul 4 10:54:17 MDT 2008", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v26/i05", abstract = "Model averaging has been shown to be a useful method for incorporating model uncertainty in quantitative risk estimation. In certain circumstances this technique is computationally complex, requiring sophisticated software to carry out the computation. We introduce software that implements model averaging for risk assessment based upon dichotomous dose-response data. This software, which we call Model Averaging for Dichotomous Response Benchmark Dose ({\bf MADr-BMD}), fits the quantal response models, which are also used in the US Environmental Protection Agency benchmark dose software suite, and generates a model-averaged dose response model to generate benchmark dose and benchmark dose lower bound estimates. The software fulfills a need for risk assessors, allowing them to go beyond one single model in their risk assessments based on quantal data by focusing on a set of models that describes the experimental data.", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-04-20; Accepted 2008-02-04", xxtitle = "Model Averaging Software for Dichotomous Dose Response Risk Estimation", } @Article{Kiermeier:2008:VAA, author = "Andreas Kiermeier", title = "Visualizing and Assessing Acceptance Sampling Plans: The {R} Package \pkg{AcceptanceSampling}", journal = j-J-STAT-SOFT, volume = "26", number = "6", pages = "??--??", month = jul, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v026.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:40 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v26/i06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-06-29; Accepted 2008-06-24", xxtitle = "Visualizing and Assessing Acceptance Sampling Plans: The R Package {AcceptanceSampling}", } @Article{Peng:2008:CDS, author = "Roger D. Peng", title = "Caching and Distributing Statistical Analyses in {R}", journal = j-J-STAT-SOFT, volume = "26", number = "7", pages = "??--??", month = jul, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v026.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:40 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v26/i07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-10-26; Accepted 2008-07-10", xxtitle = "Caching and Distributing Statistical Analyses in R", } @Article{Zeileis:2008:ERP, author = "Achim Zeileis and Roger Koenker", title = "Econometrics in {R}: Past, Present, and Future", journal = j-J-STAT-SOFT, volume = "27", number = "1", pages = "??--??", month = jul, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v027.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:40 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v27/i01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-07-22; Accepted 2008-07-22", xxtitle = "Econometrics in R : Past, Present, and Future", } @Article{Croissant:2008:PDE, author = "Yves Croissant and Giovanni Millo", title = "Panel Data Econometrics in {R}: The \pkg{plm} Package", journal = j-J-STAT-SOFT, volume = "27", number = "2", pages = "??--??", month = jul, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v027.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:40 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v27/i02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-06-06; Accepted 2008-03-20", xxtitle = "Panel Data Econometrics in R : The plm Package", } @Article{Hyndman:2008:ATS, author = "Rob J. Hyndman and Yeasmin Khandakar", title = "Automatic Time Series Forecasting: The \pkg{forecast} Package for {R}", journal = j-J-STAT-SOFT, volume = "27", number = "3", pages = "??--??", month = jul, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v027.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:40 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v27/i03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-05-29; Accepted 2008-03-22", xxtitle = "Automatic Time Series Forecasting: The forecast Package for R", } @Article{Pfaff:2008:VSS, author = "Bernhard Pfaff", title = "{VAR}, {SVAR} and {SVEC} Models: Implementation Within {R} Package \pkg{vars}", journal = j-J-STAT-SOFT, volume = "27", number = "4", pages = "??--??", month = jul, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v027.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:40 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v27/i04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-05-07; Accepted 2008-02-19", xxtitle = "{VAR}, {SVAR} and {SVEC} Models: Implementation Within R Package vars", } @Article{Hayfield:2008:NEN, author = "Tristen Hayfield and Jeffrey S. Racine", title = "Nonparametric Econometrics: The \pkg{np} Package", journal = j-J-STAT-SOFT, volume = "27", number = "5", pages = "??--??", month = jul, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v027.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:40 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v27/i05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-04-30; Accepted 2008-07-22", xxtitle = "Nonparametric Econometrics: The np Package", } @Article{Koenker:2008:CQR, author = "Roger Koenker", title = "Censored Quantile Regression Redux", journal = j-J-STAT-SOFT, volume = "27", number = "6", pages = "??--??", month = jul, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v027.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:40 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v27/i06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-02-20; Accepted 2008-05-26", xxtitle = "Censored Quantile Regression Redux", } @Article{Toomet:2008:SSM, author = "Ott Toomet and Arne Henningsen", title = "Sample Selection Models in {R}: Package \pkg{sampleSelection}", journal = j-J-STAT-SOFT, volume = "27", number = "7", pages = "??--??", month = jul, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v027.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:40 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v27/i07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-05-01; Accepted 2008-06-06", xxtitle = "Sample Selection Models in R : Package {sampleSelection}", } @Article{Zeileis:2008:RMC, author = "Achim Zeileis and Christian Kleiber and Simon Jackman", title = "Regression Models for Count Data in {R}", journal = j-J-STAT-SOFT, volume = "27", number = "8", pages = "??--??", month = jul, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v027.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:40 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v27/i08", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-05-04; Accepted 2008-06-06", xxtitle = "Regression Models for Count Data in R", } @Article{Hartmann:2008:BRB, author = "Wolfgang M. Hartmann", title = "Book Review: {{\booktitle{SAS for Data Analysis: Intermediate Statistical Methods}}}", journal = j-J-STAT-SOFT, volume = "28", number = "BR-1", pages = "??--??", month = oct, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v028.b01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v28/b01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-10-26; Accepted 2008-10-26", } @Article{Schmidberger:2008:BRB, author = "Markus Schmidberger", title = "Book Review: {{\booktitle{Introduction to Machine Learning and Bioinformatics}}}", journal = j-J-STAT-SOFT, volume = "28", number = "BR-2", pages = "??--??", month = nov, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v028.b02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v28/b02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-11-04; Accepted 2008-11-04", } @Article{Wickham:2008:BRBb, author = "Hadley Wickham", title = "Book Review: {{\booktitle{A First Course in Statistical Programming with R}}}", journal = j-J-STAT-SOFT, volume = "28", number = "BR-3", pages = "??--??", month = dec, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v028.b03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v28/b03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-12-09; Accepted 2008-12-09", } @Article{Kampstra:2008:CSB, author = "Peter Kampstra", title = "Code Snippet: \pkg{Beanplot}: a Boxplot Alternative for Visual Comparison of Distributions", journal = j-J-STAT-SOFT, volume = "28", number = "CS-1", pages = "??--??", month = nov, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v028.c01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v28/c01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-09-19; Accepted 2008-10-28", } @Article{Feng:2008:CDI, author = "Dai Feng and Luke Tierney", title = "Computing and Displaying Isosurfaces in {R}", journal = j-J-STAT-SOFT, volume = "28", number = "1", pages = "??--??", month = sep, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v028.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v28/i01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-05-28; Accepted 2008-09-04", xxtitle = "Computing and Displaying Isosurfaces in R", } @Article{McLeod:2008:ISA, author = "A. Ian McLeod and Ying Zhang", title = "Improved Subset Autoregression: With {R} Package", journal = j-J-STAT-SOFT, volume = "28", number = "2", pages = "??--??", month = oct, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v028.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v28/i02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-08-26; Accepted 2008-07-03", xxtitle = "Improved Subset Autoregression: With R Package", } @Article{Hui:2008:LRP, author = "Wallace Hui and Yulia R. Gel and Joseph L. Gastwirth", title = "\pkg{lawstat}: An {R} Package for Law, Public Policy and Biostatistics", journal = j-J-STAT-SOFT, volume = "28", number = "3", pages = "??--??", month = oct, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v028.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v28/i03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-11-12; Accepted 2008-01-11", xxtitle = "lawstat : An R Package for Law, Public Policy and Biostatistics", } @Article{Grun:2008:FVF, author = "Bettina Gr{\"u}n and Friedrich Leisch", title = "{FlexMix} Version 2: Finite Mixtures with Concomitant Variables and Varying and Constant Parameters", journal = j-J-STAT-SOFT, volume = "28", number = "4", pages = "??--??", month = oct, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v028.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v28/i04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-01-11; Accepted 2008-09-19", xxtitle = "{FlexMix} Version 2: Finite Mixtures with Concomitant Variables and Varying and Constant Parameters", } @Article{Kuhn:2008:BPM, author = "Max Kuhn", title = "Building Predictive Models in {R} Using the \pkg{caret} Package", journal = j-J-STAT-SOFT, volume = "28", number = "5", pages = "??--??", month = nov, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v028.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v28/i05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-04-22; Accepted 2008-08-18", xxtitle = "Building Predictive Models in R Using the caret Package", } @Article{Nordhausen:2008:TEM, author = "Klaus Nordhausen and Hannu Oja and David E. Tyler", title = "Tools for Exploring Multivariate Data: The Package \pkg{ICS}", journal = j-J-STAT-SOFT, volume = "28", number = "6", pages = "??--??", month = nov, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v028.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v28/i06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-02-19; Accepted 2008-09-03", xxtitle = "Tools for Exploring Multivariate Data: The Package {ICS}", } @Article{Kairalla:2008:GSI, author = "John A. Kairalla and Christopher S. Coffey and Keith E. Muller", title = "{GLUMIP 2.0}: {SAS\slash IML} Software for Planning Internal Pilots", journal = j-J-STAT-SOFT, volume = "28", number = "7", pages = "??--??", month = nov, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v028.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v28/i07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-05-31; Accepted 2008-09-16", xxtitle = "{GLUMIP} 2.0: {SAS}/{IML} Software for Planning Internal Pilots", } @Article{Hothorn:2008:ICP, author = "Torsten Hothorn and Kurt Hornik and Mark A. van de Wiel and Achim Zeileis", title = "Implementing a Class of Permutation Tests: The \pkg{coin} Package", journal = j-J-STAT-SOFT, volume = "28", number = "8", pages = "??--??", month = nov, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v028.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v28/i08", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-07-05; Accepted 2008-10-21", xxtitle = "Implementing a Class of Permutation Tests: The coin Package", } @Article{Cao:2008:ORP, author = "Kim-Anh L{\^e} Cao and Patrick Chabrier", title = "\pkg{ofw}: An {R} Package to Select Continuous Variables for Multiclass Classification with a Stochastic Wrapper Method", journal = j-J-STAT-SOFT, volume = "28", number = "9", pages = "??--??", month = nov, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v028.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v28/i09", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-02-13; Accepted 2008-07-25", xxtitle = "ofw : An R Package to Select Continuous Variables for Multiclass Classification with a Stochastic Wrapper Method", } @Article{Sheng:2008:MPMb, author = "Yanyan Sheng", title = "A {MATLAB} Package for {Markov} Chain {Monte Carlo} with a Multi-Unidimensional {IRT} Model", journal = j-J-STAT-SOFT, volume = "28", number = "10", pages = "??--??", month = nov, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v028.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v28/i10", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-04-22; Accepted 2008-11-08", xxtitle = "A {MATLAB} Package for Markov Chain Monte Carlo with a Multi-Unidimensional {IRT} Model", } @Article{West:2008:ETT, author = "Luke J. West and Robin K. S. Hankin", title = "Exact Tests for Two-Way Contingency Tables with Structural Zeros", journal = j-J-STAT-SOFT, volume = "28", number = "11", pages = "??--??", month = nov, year = "2008", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v028.i11", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v28/i11", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-01-23; Accepted 2008-11-11", xxtitle = "Exact Tests for Two-Way Contingency Tables with Structural Zeros", } @Article{Unwin:2009:BRB, author = "Antony Unwin", title = "Book Review: {{\booktitle{Bioconductor Case Studies}}}", journal = j-J-STAT-SOFT, volume = "29", number = "BR-1", pages = "??--??", month = jan, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.b01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v29/b01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-01-02; Accepted 2009-01-02", } @Article{Valero-Mora:2009:BRBa, author = "Pedro M. Valero-Mora", title = "Book Review: {{\booktitle{Introductory Statistics with R}} (Second Edition)}", journal = j-J-STAT-SOFT, volume = "29", number = "BR-10", pages = "??--??", month = jan, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.b10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v29/b10", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-01-15; Accepted 2009-01-15", } @Article{Maindonald:2009:BRBa, author = "John Maindonald", title = "Book Review: {{\booktitle{Modern Multivariate Statistical Techniques: Regression, Classification and Manifold Learning}}}", journal = j-J-STAT-SOFT, volume = "29", number = "BR-11", pages = "??--??", month = feb, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.b11", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v29/b11", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-02-09; Accepted 2009-02-09", } @Article{Maindonald:2009:BRBb, author = "John Maindonald", title = "Book Review: {{\booktitle{Statistical Learning from a Regression Perspective}}}", journal = j-J-STAT-SOFT, volume = "29", number = "BR-12", pages = "??--??", month = feb, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.b12", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v29/b12", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-02-09; Accepted 2009-02-09", } @Article{Mair:2009:BRB, author = "Patrick Mair", title = "Book Review: {{\booktitle{Analysis of Multivariate Social Science Data}} (2nd Edition)}", journal = j-J-STAT-SOFT, volume = "29", number = "BR-13", pages = "??--??", month = feb, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.b13", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v29/b13", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-02-18; Accepted 2009-02-18", } @Article{Eddelbuettel:2009:BRBa, author = "Dirk Eddelbuettel", title = "Book Review: {{\booktitle{Applied Econometrics with R}}}", journal = j-J-STAT-SOFT, volume = "29", number = "BR-14", pages = "??--??", month = feb, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.b14", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v29/b14", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-02-25; Accepted 2009-02-25", } @Article{Sanchez:2009:BRB, author = "Juana Sanchez", title = "Book Review: {{\booktitle{Probability with R-An Introduction with Computer Science Applications}}}", journal = j-J-STAT-SOFT, volume = "29", number = "BR-2", pages = "??--??", month = jan, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.b02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v29/b02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-01-02; Accepted 2009-01-02", } @Article{Achard:2009:BRB, author = "Sophie Achard", title = "Book Review: {{\booktitle{The Statistical Analysis of Functional MRI Data}}}", journal = j-J-STAT-SOFT, volume = "29", number = "BR-3", pages = "??--??", month = jan, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.b03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v29/b03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-01-02; Accepted 2009-01-02", } @Article{Ellis:2009:BRB, author = "Byron Ellis", title = "Book Review: {{\booktitle{Software for Data Analysis}}}", journal = j-J-STAT-SOFT, volume = "29", number = "BR-4", pages = "??--??", month = jan, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.b04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v29/b04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-01-02; Accepted 2009-01-02", } @Article{Lenth:2009:BRB, author = "Russell V. Lenth", title = "Book Review: {{\booktitle{Design and Analysis of Experiments: Classical and Regression Approaches with SAS}}}", journal = j-J-STAT-SOFT, volume = "29", number = "BR-5", pages = "??--??", month = jan, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.b05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v29/b05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-01-03; Accepted 2009-01-03", } @Article{deLeeuw:2009:BRBa, author = "Jan de Leeuw", title = "Book Review: {{\booktitle{Nonlinear Regression with R}}}", journal = j-J-STAT-SOFT, volume = "29", number = "BR-6", pages = "??--??", month = jan, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.b06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v29/b06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-01-04; Accepted 2009-01-04", } @Article{deLeeuw:2009:BRBb, author = "Jan de Leeuw", title = "Book Review: {{\booktitle{Statistical Methods for Environmental Epidemiology with R}}}", journal = j-J-STAT-SOFT, volume = "29", number = "BR-7", pages = "??--??", month = jan, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.b07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v29/b07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-01-05; Accepted 2009-01-05", } @Article{deLeeuw:2009:BRBc, author = "Jan de Leeuw", title = "Book Review: {{\booktitle{R Programming for Bioinformatics}}}", journal = j-J-STAT-SOFT, volume = "29", number = "BR-8", pages = "??--??", month = jan, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.b08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v29/b08", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-01-10; Accepted 2009-01-10", } @Article{Rosario:2009:BRB, author = "Ryan Rosario", title = "Book Review: {{\booktitle{Practical Text Mining with Perl}}}", journal = j-J-STAT-SOFT, volume = "29", number = "BR-9", pages = "??--??", month = jan, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.b09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v29/b09", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-01-14; Accepted 2008-01-14", } @Article{Wang:2009:CSC, author = "Bing-Shun Wang and Xiao-Jin Wang and Li-Kun Gong", title = "Code Snippet: The Construction of a {Williams} Design and Randomization in Cross-Over Clinical Trials Using {SAS}", journal = j-J-STAT-SOFT, volume = "29", number = "CS-1", pages = "??--??", month = feb, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.c01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v29/c01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-10-09; Accepted 2009-02-18", } @Article{Cho:2009:RLB, author = "HyungJun Cho and Ami Yu and Sukwoo Kim and Jaewoo Kang and Seung-Mo Hong", title = "Robust Likelihood-Based Survival Modeling with Microarray Data", journal = j-J-STAT-SOFT, volume = "29", number = "1", pages = "??--??", month = jan, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v29/i01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-10-16; Accepted 2008-09-23", xxtitle = "Robust Likelihood-Based Survival Modeling with Microarray Data", } @Article{Cule:2009:LRP, author = "Madeleine Cule and Robert B. Gramacy and Richard Samworth", title = "\pkg{LogConcDEAD}: An {R} Package for Maximum Likelihood Estimation of a Multivariate Log-Concave Density", journal = j-J-STAT-SOFT, volume = "29", number = "2", pages = "??--??", month = jan, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v29/i02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-07-07; Accepted 2008-12-14", xxtitle = "{LogConcDEAD} : An R Package for Maximum Likelihood Estimation of a Multivariate Log-Concave Density", } @Article{Ardia:2009:AMS, author = "David Ardia and Lennart F. Hoogerheide and Herman K. van Dijk", title = "Adaptive Mixture of {Student-$t$} Distributions as a Flexible Candidate Distribution for Efficient Simulation: The {R} Package \pkg{AdMit}", journal = j-J-STAT-SOFT, volume = "29", number = "3", pages = "??--??", month = jan, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v29/i03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-06-30; Accepted 2008-12-01", xxtitle = "Adaptive Mixture of Student- t Distributions as a Flexible Candidate Distribution for Efficient Simulation: The R Package {AdMit}", } @Article{Dahl:2009:RAR, author = "David B. Dahl and Scott Crawford", title = "\pkg{RinRuby}: Accessing the {R} Interpreter from Pure {Ruby}", journal = j-J-STAT-SOFT, volume = "29", number = "4", pages = "??--??", month = jan, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v29/i04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-07-03; Accepted 2008-11-26", xxtitle = "{RinRuby} : Accessing the R Interpreter from Pure Ruby", } @Article{Vinod:2009:MEB, author = "Hrishikesh D. Vinod and Javier L{\'o}pez-de-Lacalle", title = "Maximum Entropy Bootstrap for Time Series: The \pkg{meboot} {R} Package", journal = j-J-STAT-SOFT, volume = "29", number = "5", pages = "??--??", month = jan, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v29/i05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-10-17; Accepted 2008-07-04", xxtitle = "Maximum Entropy Bootstrap for Time Series: The meboot R Package", } @Article{Helmreich:2009:PRP, author = "James E. Helmreich and Robert M. Pruzek", title = "\pkg{PSAgraphics}: An {R} Package to Support Propensity Score Analysis", journal = j-J-STAT-SOFT, volume = "29", number = "6", pages = "??--??", month = feb, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v29/i06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-09-24; Accepted 2008-12-22", xxtitle = "{PSAgraphics} : An R Package to Support Propensity Score Analysis", } @Article{Bornkamp:2009:MRP, author = "Bj{\"o}rn Bornkamp and Jos{\'e} Pinheiro and Frank Bretz", title = "\pkg{MCPMod}: An {R} Package for the Design and Analysis of Dose-Finding Studies", journal = j-J-STAT-SOFT, volume = "29", number = "7", pages = "??--??", month = feb, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v29/i07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-05-15; Accepted 2009-01-22", xxtitle = "{MCPMod} : An R Package for the Design and Analysis of Dose-Finding Studies", } @Article{Solymos:2009:PED, author = "P{\'e}ter S{\'o}lymos", title = "Processing Ecological Data in {R} with the \pkg{mefa} Package", journal = j-J-STAT-SOFT, volume = "29", number = "8", pages = "??--??", month = feb, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v29/i08", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-10-09; Accepted 2009-01-04", xxtitle = "Processing Ecological Data in R with the mefa Package", } @Article{Siddique:2009:MSM, author = "Juned Siddique and Ofer Harel", title = "\pkg{MIDAS}: a {SAS} Macro for Multiple Imputation Using Distance-Aided Selection of Donors", journal = j-J-STAT-SOFT, volume = "29", number = "9", pages = "??--??", month = feb, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v29/i09", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-09-10; Accepted 2009-01-28", xxtitle = "{MIDAS} : A {SAS} Macro for Multiple Imputation Using Distance-Aided Selection of Donors", } @Article{Grun:2009:AGE, author = "Bettina Gr{\"u}n and Achim Zeileis", title = "Automatic Generation of Exams in {R}", journal = j-J-STAT-SOFT, volume = "29", number = "10", pages = "??--??", month = feb, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v029.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v29/i10", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-11-10; Accepted 2009-02-17", xxtitle = "Automatic Generation of Exams in R", } @Article{Maloney:2009:BRB, author = "Laurence T. Maloney", title = "Book Review: {{\booktitle{Introduction to Probability with R}}}", journal = j-J-STAT-SOFT, volume = "30", number = "BR-1", pages = "??--??", month = apr, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v030.b01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v30/b01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-04-27; Accepted 2009-04-27", } @Article{Wilson:2009:BRB, author = "Brigid Wilson", title = "Book Review: {{\booktitle{A Handbook of Statistical Analyses Using SAS}} (Third Edition)}", journal = j-J-STAT-SOFT, volume = "30", number = "BR-2", pages = "??--??", month = apr, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v030.b02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v30/b02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-04-27; Accepted 2009-04-27", } @Article{Hilbe:2009:BRBa, author = "Joseph Hilbe", title = "Book Review: {{\booktitle{Data Analysis Using Regression and Multilevel/Hierarchical Models}}}", journal = j-J-STAT-SOFT, volume = "30", number = "BR-3", pages = "??--??", month = apr, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v030.b03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v30/b03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-04-27; Accepted 2009-04-27", } @Article{Hilbe:2009:BRBb, author = "Joseph Hilbe", title = "Book Review: {{\booktitle{Survival Analysis for Epidemiologic and Medical Research}}}", journal = j-J-STAT-SOFT, volume = "30", number = "BR-4", pages = "??--??", month = apr, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v030.b04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v30/b04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-04-27; Accepted 2009-04-27", } @Article{Eddelbuettel:2009:BRBb, author = "Dirk Eddelbuettel", title = "Book Review: {{\booktitle{Analysis of Integrated and Cointegrated Time Series with R}} (2nd Edition)}", journal = j-J-STAT-SOFT, volume = "30", number = "BR-5", pages = "??--??", month = apr, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v030.b05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v30/b05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-04-27; Accepted 2009-04-27", } @Article{Sargin:2009:BRB, author = "Anatol Sargin", title = "Book Review: {{\booktitle{Statistics and Data with R: An Applied Approach Through Examples}}}", journal = j-J-STAT-SOFT, volume = "30", number = "BR-6", pages = "??--??", month = apr, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v030.b06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v30/b06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-04-27; Accepted 2009-04-27", } @Article{Valero-Mora:2009:BRBb, author = "Pedro M. Valero-Mora", title = "Book Review: {{\booktitle{Interactive and Dynamic Graphics for Data Analysis: With R and GGobi}}}", journal = j-J-STAT-SOFT, volume = "30", number = "BR-7", pages = "??--??", month = may, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v030.b07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v30/b07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-05-11; Accepted 2009-05-11", } @Article{VandenMeersche:2009:CSF, author = "Karel {Van den Meersche} and Karline Soetaert and Dick {Van Oevelen}", title = "Code Snippet: \fun{xsample()}: An {R} Function for Sampling Linear Inverse Problems", journal = j-J-STAT-SOFT, volume = "30", number = "CS-1", pages = "??--??", month = apr, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v030.c01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v30/c01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-05-26; Accepted 2009-03-31", } @Article{Murrell:2009:QCS, author = "Paul Murrell and Stephen Gardiner", title = "Quality Control for Statistical Graphics: The \pkg{graphicsQC} Package for {R}", journal = j-J-STAT-SOFT, volume = "30", number = "1", pages = "??--??", month = apr, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v030.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v30/i01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-12-08; Accepted 2009-02-25", xxtitle = "Quality Control for Statistical Graphics: The {graphicsQC} Package for R", } @Article{Hoffmann:2009:FMA, author = "Thomas J. Hoffmann and Nan M. Laird", title = "\pkg{fgui}: a Method for Automatically Creating Graphical User Interfaces for Command-Line {R} Packages", journal = j-J-STAT-SOFT, volume = "30", number = "2", pages = "??--??", month = apr, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v030.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v30/i02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-10-01; Accepted 2009-03-02", xxtitle = "fgui : A Method for Automatically Creating Graphical User Interfaces for Command-Line R Packages", } @Article{Chu:2009:SAI, author = "Annie Chu and Jenny Cui and Ivo D. Dinov", title = "{SOCR} Analyses: Implementation and Demonstration of a New Graphical Statistics Educational Toolkit", journal = j-J-STAT-SOFT, volume = "30", number = "3", pages = "??--??", month = apr, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v030.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v30/i03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-10-13; Accepted 2009-01-29", xxtitle = "{SOCR} Analyses: Implementation and Demonstration of a New Graphical Statistics Educational Toolkit", } @Article{Murrell:2009:IVG, author = "Paul Murrell", title = "Importing Vector Graphics: The \pkg{grImport} Package for {R}", journal = j-J-STAT-SOFT, volume = "30", number = "4", pages = "??--??", month = apr, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v030.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v30/i04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-11-16; Accepted 2009-02-27", xxtitle = "Importing Vector Graphics: The {grImport} Package for R", } @Article{Johnson:2009:PSI, author = "Jacqueline L. Johnson and Keith E. Muller and James C. Slaughter and Matthew J. Gurka and Matthew J. Gribbin and Sean L. Simpson", title = "\pkg{POWERLIB}: {SAS}/{IML} Software for Computing Power in Multivariate Linear Models", journal = j-J-STAT-SOFT, volume = "30", number = "5", pages = "??--??", month = apr, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v030.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v30/i05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-11-26; Accepted 2008-02-13", xxtitle = "{POWERLIB} : {SAS}/{IML} Software for Computing Power in Multivariate Linear Models", } @Article{Johansen:2009:SSM, author = "Adam M. Johansen", title = "\pkg{SMCTC}: Sequential {Monte Carlo} in {C++}", journal = j-J-STAT-SOFT, volume = "30", number = "6", pages = "??--??", month = apr, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v030.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v30/i06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-08-29; Accepted 2009-03-24", xxtitle = "{SMCTC} : Sequential Monte Carlo in C$\mathplus\mathplus$", } @Article{Kontopantelis:2009:MMA, author = "Evangelos Kontopantelis and David Reeves", title = "\pkg{MetaEasy}: a Meta-Analysis Add-In for {Microsoft Excel}", journal = j-J-STAT-SOFT, volume = "30", number = "7", pages = "??--??", month = apr, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v030.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v30/i07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-04-23; Accepted 2009-03-17", xxtitle = "{MetaEasy} : A Meta-Analysis Add-In for Microsoft Excel", } @Article{Eugster:2009:SMH, author = "Manuel J. A. Eugster and Friedrich Leisch", title = "From {Spider-Man} to Hero --- Archetypal Analysis in {R}", journal = j-J-STAT-SOFT, volume = "30", number = "8", pages = "??--??", month = apr, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v030.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v30/i08", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-12-11; Accepted 2009-04-21", xxtitle = "From Spider-Man to Hero - Archetypal Analysis in R", } @Article{Iacus:2009:CSC, author = "Stefano M. Iacus and Gary King and Giuseppe Porro", title = "\pkg{cem}: Software for Coarsened Exact Matching", journal = j-J-STAT-SOFT, volume = "30", number = "9", pages = "??--??", month = jun, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v030.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v30/i09", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-08-20; Accepted 2009-04-06", xxtitle = "cem : Software for Coarsened Exact Matching", } @Article{Holmes:2009:IJS, author = "Susan Holmes and Adam Kapelner and Peter P. Lee", title = "An Interactive {Java} Statistical Image Segmentation System: \pkg{GemIdent}", journal = j-J-STAT-SOFT, volume = "30", number = "10", pages = "??--??", month = jun, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v030.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v30/i10", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-08-09; Accepted 2009-01-15", xxtitle = "An Interactive Java Statistical Image Segmentation System: {GemIdent}", } @Article{Kao:2009:MOO, author = "Ming-Hung Kao", title = "Multi-Objective Optimal Experimental Designs for {ER-fMRI} Using {MATLAB}", journal = j-J-STAT-SOFT, volume = "30", number = "11", pages = "??--??", month = jun, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v030.i11", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v30/i11", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-10-31; Accepted 2009-04-21", xxtitle = "Multi-Objective Optimal Experimental Designs for {ER}-{fMRI} Using {MATLAB}", } @Article{laGrange:2009:BIB, author = "Anthony la Grange and Ni{\"e}l le Roux and Sugnet Gardner-Lubbe", title = "\pkg{BiplotGUI}: Interactive Biplots in {R}", journal = j-J-STAT-SOFT, volume = "30", number = "12", pages = "??--??", month = jun, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v030.i12", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v30/i12", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-07-29; Accepted 2009-03-17", xxtitle = "{BiplotGUI} : Interactive Biplots in R", } @Article{Buttrey:2009:EAS, author = "Samuel E. Buttrey", title = "An {Excel} Add-In for Statistical Process Control Charts", journal = j-J-STAT-SOFT, volume = "30", number = "13", pages = "??--??", month = jun, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v030.i13", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v30/i13", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-09-13; Accepted 2009-03-18", xxtitle = "An Excel Add-In for Statistical Process Control Charts", } @Article{Bowman:2009:BRB, author = "Adrian Bowman", title = "Book Review: {{\booktitle{Morphometrics with R}}}", journal = j-J-STAT-SOFT, volume = "31", number = "BR-1", pages = "??--??", month = sep, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v031.b01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v31/b01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-09-19; Accepted 2009-09-19", } @Article{Sabatti:2009:BRB, author = "Chiara Sabatti and Christophe Lalanne", title = "Book Review: {{\booktitle{Applied Statistical Genetics with R for Population-Based Association Studies}}}", journal = j-J-STAT-SOFT, volume = "31", number = "BR-2", pages = "??--??", month = sep, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v031.b02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v31/b02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-09-19; Accepted 2009-09-19", } @Article{Kukuyeva:2009:BRB, author = "Irina Kukuyeva", title = "Book Review: {{\booktitle{Principles of Modeling and Simulation: A Multidisciplinary Approach}}}", journal = j-J-STAT-SOFT, volume = "31", number = "BR-3", pages = "??--??", month = sep, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v031.b03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v31/b03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-09-25; Accepted 2009-09-25", } @Article{Rufibach:2009:CSR, author = "Kaspar Rufibach", title = "Code Snippet: reporttools: {R} Functions to Generate {LaTeX} Tables of Descriptive Statistics", journal = j-J-STAT-SOFT, volume = "31", number = "CS-1", pages = "??--??", month = aug, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v031.c01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v31/c01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-11-13; Accepted 2009-05-05", } @Article{Pan:2009:CSS, author = "Wei Pan", title = "Code Snippet: a {SAS\slash IML} Macro for Computing Percentage Points of {Pearson} Distributions", journal = j-J-STAT-SOFT, volume = "31", number = "CS-2", pages = "??--??", month = sep, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v031.c02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v31/c02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-02-17; Accepted 2009-07-07", } @Article{Dryver:2009:CSE, author = "Arthur Dryver", title = "Code Snippet: The Enhancement of Teaching Materials for Applied Statistics Courses by Combining Random Number Generation and Portable Document Format Files via {\LaTeX}", journal = j-J-STAT-SOFT, volume = "31", number = "CS-3", pages = "1--9", month = sep, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v031.c03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v31/c03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-09-17; Accepted 2009-05-27", } @Article{Schmidberger:2009:SAP, author = "Markus Schmidberger and Martin Morgan and Dirk Eddelbuettel and Hao Yu and Luke Tierney and Ulrich Mansmann", title = "State of the Art in Parallel Computing with {R}", journal = j-J-STAT-SOFT, volume = "31", number = "1", pages = "??--??", month = aug, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v031.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v31/i01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-12-29; Accepted 2009-06-02", xxtitle = "State of the Art in Parallel Computing with R", } @Article{Meyer:2009:GCS, author = "David Meyer and Kurt Hornik", title = "Generalized and Customizable Sets in {R}", journal = j-J-STAT-SOFT, volume = "31", number = "2", pages = "??--??", month = aug, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v031.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v31/i02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-01-21; Accepted 2009-06-11", xxtitle = "Generalized and Customizable Sets in R", } @Article{deLeeuw:2009:MSU, author = "Jan de Leeuw and Patrick Mair", title = "Multidimensional Scaling Using Majorization: {SMACOF} in {R}", journal = j-J-STAT-SOFT, volume = "31", number = "3", pages = "??--??", month = aug, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v031.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v31/i03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-11-28; Accepted 2009-06-03", xxtitle = "Multidimensional Scaling Using Majorization: {SMACOF} in R", } @Article{deLeeuw:2009:GMO, author = "Jan de Leeuw and Patrick Mair", title = "{Gifi} Methods for Optimal Scaling in {R}: The Package \pkg{homals}", journal = j-J-STAT-SOFT, volume = "31", number = "4", pages = "??--??", month = aug, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v031.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v31/i04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-11-06; Accepted 2009-07-23", xxtitle = "Gifi Methods for Optimal Scaling in R : The Package homals", } @Article{deLeeuw:2009:SCC, author = "Jan de Leeuw and Patrick Mair", title = "Simple and Canonical Correspondence Analysis Using the {R} Package \pkg{anacor}", journal = j-J-STAT-SOFT, volume = "31", number = "5", pages = "??--??", month = aug, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v031.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v31/i05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-11-25; Accepted 2009-06-18", xxtitle = "Simple and Canonical Correspondence Analysis Using the R Package anacor", } @Article{Unlu:2009:FSR, author = "Ali {\"U}nl{\"u} and Thomas Kiefer and Ehtibar N. Dzhafarov", title = "{Fechnerian} Scaling in {R}: The Package \pkg{fechner}", journal = j-J-STAT-SOFT, volume = "31", number = "6", pages = "??--??", month = aug, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v031.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v31/i06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-03-30; Accepted 2009-07-29", xxtitle = "Fechnerian Scaling in R : The Package fechner", } @Article{Giorgino:2009:CVD, author = "Toni Giorgino", title = "Computing and Visualizing Dynamic Time Warping Alignments in {R}: The \pkg{dtw} Package", journal = j-J-STAT-SOFT, volume = "31", number = "7", pages = "??--??", month = aug, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v031.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v31/i07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-09-30; Accepted 2009-06-26", xxtitle = "Computing and Visualizing Dynamic Time Warping Alignments in R : The dtw Package", } @Article{Lorenzo-Seva:2009:CMP, author = "Urbano Lorenzo-Seva and Michel van de Velden and Henk A. L. Kiers", title = "\pkg{CAR}: a {MATLAB} Package to Compute Correspondence Analysis with Rotations", journal = j-J-STAT-SOFT, volume = "31", number = "8", pages = "??--??", month = sep, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v031.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v31/i08", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-12-18; Accepted 2009-07-14", xxtitle = "{CAR} : A {MATLAB} Package to Compute Correspondence Analysis with Rotations", } @Article{Polzehl:2009:SAS, author = "J{\"o}rg Polzehl and Karsten Tabelow", title = "Structural Adaptive Smoothing in Diffusion Tensor Imaging: The {R} Package \pkg{dti}", journal = j-J-STAT-SOFT, volume = "31", number = "9", pages = "??--??", month = sep, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v031.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v31/i09", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-01-12; Accepted 2009-06-25", xxtitle = "Structural Adaptive Smoothing in Diffusion Tensor Imaging: The R Package dti", } @Article{Berens:2009:CMT, author = "Philipp Berens", title = "\pkg{CircStat}: a {MATLAB} Toolbox for Circular Statistics", journal = j-J-STAT-SOFT, volume = "31", number = "10", pages = "??--??", month = sep, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v031.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v31/i10", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-07-27; Accepted 2009-08-26", xxtitle = "{CircStat} : A {MATLAB} Toolbox for Circular Statistics", } @Article{Christ:2009:BRB, author = "Aaron Christ", title = "Book Review: {{\booktitle{Mixed Effects Models and Extensions in Ecology with R}}}", journal = j-J-STAT-SOFT, volume = "32", number = "BR-1", pages = "??--??", month = nov, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v032.b01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v32/b01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-11-08; Accepted 2009-11-08", } @Article{Eddelbuettel:2009:BRBc, author = "Dirk Eddelbuettel", title = "Book Review: {{\booktitle{Computational Statistics: An Introduction to R}}}", journal = j-J-STAT-SOFT, volume = "32", number = "BR-2", pages = "??--??", month = dec, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v032.b02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v32/b02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-12-22; Accepted 2009-12-22", } @Article{Lawson:2009:CSB, author = "John Lawson and G. Bruce Schaalje and Bruce Jay Collings", title = "Code Snippet: Blocking Mixed-Level Factorials with {SAS}", journal = j-J-STAT-SOFT, volume = "32", number = "CS-1", pages = "??--??", month = nov, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v032.c01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v32/c01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-06-07; Accepted 2009-06-22", } @Article{Fox:2009:EDR, author = "John Fox and Jangman Hong", title = "Effect Displays in {R} for Multinomial and Proportional-Odds Logit Models: Extensions to the \pkg{effects} Package", journal = j-J-STAT-SOFT, volume = "32", number = "1", pages = "??--??", month = oct, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v032.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v32/i01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-04-17; Accepted 2009-09-22", xxtitle = "Effect Displays in R for Multinomial and Proportional-Odds Logit Models: Extensions to the effects Package", } @Article{Lupi:2009:URC, author = "Claudio Lupi", title = "Unit Root {CADF} Testing with {R}", journal = j-J-STAT-SOFT, volume = "32", number = "2", pages = "??--??", month = oct, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v032.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v32/i02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-12-29; Accepted 2009-08-10", xxtitle = "Unit Root {CADF} Testing with R", } @Article{Todorov:2009:OOF, author = "Valentin Todorov and Peter Filzmoser", title = "An Object-Oriented Framework for Robust Multivariate Analysis", journal = j-J-STAT-SOFT, volume = "32", number = "3", pages = "??--??", month = oct, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v032.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v32/i03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-02-26; Accepted 2009-08-08", xxtitle = "An Object-Oriented Framework for Robust Multivariate Analysis", } @Article{Varadhan:2009:BRP, author = "Ravi Varadhan and Paul Gilbert", title = "\pkg{BB}: An {R} Package for Solving a Large System of Nonlinear Equations and for Optimizing a High-Dimensional Nonlinear Objective Function", journal = j-J-STAT-SOFT, volume = "32", number = "4", pages = "??--??", month = oct, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v032.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v32/i04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-12-31; Accepted 2009-06-29", xxtitle = "{BB} : An R Package for Solving a Large System of Nonlinear Equations and for Optimizing a High-Dimensional Nonlinear Objective Function", } @Article{deLeeuw:2009:IOR, author = "Jan de Leeuw and Kurt Hornik and Patrick Mair", title = "Isotone Optimization in {R}: Pool-Adjacent-Violators Algorithm ({PAVA}) and Active Set Methods", journal = j-J-STAT-SOFT, volume = "32", number = "5", pages = "??--??", month = oct, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v032.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v32/i05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-03-27; Accepted 2009-09-30", xxtitle = "Isotone Optimization in R : Pool-Adjacent-Violators Algorithm ({PAVA}) and Active Set Methods", } @Article{Benaglia:2009:MRP, author = "Tatiana Benaglia and Didier Chauveau and David R. Hunter and Derek S. Young", title = "\pkg{mixtools}: An {R} Package for Analyzing Mixture Models", journal = j-J-STAT-SOFT, volume = "32", number = "6", pages = "??--??", month = oct, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v032.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v32/i06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-04-28; Accepted 2009-08-18", xxtitle = "mixtools : An R Package for Analyzing Finite Mixture Models", } @Article{Lenth:2009:RSM, author = "Russell V. Lenth", title = "Response-Surface Methods in {R}, Using \pkg{rsm}", journal = j-J-STAT-SOFT, volume = "32", number = "7", pages = "??--??", month = oct, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v032.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v32/i07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-03-04; Accepted 2009-10-19", xxtitle = "Response-Surface Methods in R , Using rsm", } @Article{Grasman:2009:FCC, author = "Raoul P. P. P. Grasman and Han L. J. van der Maas and Eric-Jan Wagenmakers", title = "Fitting the Cusp Catastrophe in {R}: a \pkg{cusp} Package Primer", journal = j-J-STAT-SOFT, volume = "32", number = "8", pages = "??--??", month = nov, year = "2009", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v032.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v32/i08", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-11-10; Accepted 2009-05-09", xxtitle = "Fitting the Cusp Catastrophe in R : A cusp Package Primer", } @Article{Soetaert:2010:BRB, author = "Karline Soetaert", title = "Book Review: {{\booktitle{A Primer of Ecology with R}}}", journal = j-J-STAT-SOFT, volume = "32", number = "BR-3", pages = "??--??", month = jan, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v032.b03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v32/b03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-01-06; Accepted 2010-01-06", } @Article{Sanchez:2010:BRBa, author = "Juana Sanchez", title = "Book Review: {{\booktitle{Introductory Time Series with R}}}", journal = j-J-STAT-SOFT, volume = "32", number = "BR-4", pages = "??--??", month = jan, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v032.b04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v32/b04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-01-11; Accepted 2010-01-11", } @Article{Zhou:2010:BRB, author = "Qing Zhou", title = "Book Review: {{\booktitle{A Guide to QTL Mapping with R/qtl}}}", journal = j-J-STAT-SOFT, volume = "32", number = "BR-5", pages = "??--??", month = jan, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v032.b05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v32/b05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-01-19; Accepted 2010-01-19", } @Article{Recchia:2010:CSR, author = "Anthony Recchia", title = "Code Snippet: {R}-Squared Measures for Two-Level Hierarchical Linear Models Using {SAS}", journal = j-J-STAT-SOFT, volume = "32", number = "CS-2", pages = "??--??", month = jan, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v032.c02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v32/c02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-07-02; Accepted 2009-12-17", } @Article{Mair:2010:GFM, author = "Patrick Mair and Jan de Leeuw", title = "A General Framework for Multivariate Analysis with Optimal Scaling: The {R} Package \pkg{aspect}", journal = j-J-STAT-SOFT, volume = "32", number = "9", pages = "??--??", month = jan, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v032.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v32/i09", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-03-24; Accepted 2009-11-09", xxtitle = "A General Framework for Multivariate Analysis with Optimal Scaling: The R Package aspect", } @Article{Yee:2010:VPC, author = "Thomas W. Yee", title = "The {VGAM} Package for Categorical Data Analysis", journal = j-J-STAT-SOFT, volume = "32", number = "10", pages = "??--??", month = jan, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v032.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v32/i10", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-06-18; Accepted 2009-10-19", xxtitle = "The {VGAM} Package for Categorical Data Analysis", } @Article{Crainiceanu:2010:BFD, author = "Ciprian M. Crainiceanu and A. Jeffrey Goldsmith", title = "{Bayesian} Functional Data Analysis Using {WinBUGS}", journal = j-J-STAT-SOFT, volume = "32", number = "11", pages = "??--??", month = jan, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v032.i11", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v32/i11", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-07-29; Accepted 2009-11-09", xxtitle = "Bayesian Functional Data Analysis Using {WinBUGS}", } @Article{Muggeo:2010:ATE, author = "Vito M. R. Muggeo", title = "Analyzing Temperature Effects on Mortality Within the {R} Environment: The Constrained Segmented Distributed Lag Parameterization", journal = j-J-STAT-SOFT, volume = "32", number = "12", pages = "??--??", month = jan, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v032.i12", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v32/i12", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-12-16; Accepted 2009-12-11", xxtitle = "Analyzing Temperature Effects on Mortality Within the R Environment: The Constrained Segmented Distributed Lag Parameterization", } @Article{Yalta:2010:BRB, author = "A. Talha Yalta", title = "Book Review: {{\booktitle{Hands-On Intermediate Econometrics Using R}}}", journal = j-J-STAT-SOFT, volume = "33", number = "BR-1", pages = "??--??", month = feb, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v033.b01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v33/b01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-01-26; Accepted 2010-01-26", } @Article{Ekstrom:2010:BRB, author = "Joakim Ekstr{\"o}m", title = "Book Review: {{\booktitle{Computation of Multivariate Normal and t Probabilities}}}", journal = j-J-STAT-SOFT, volume = "33", number = "BR-2", pages = "??--??", month = feb, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v033.b02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v33/b02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-02-02; Accepted 2010-02-02", } @Article{Gould:2010:BRB, author = "Robert Gould", title = "Book Review: {{\booktitle{A Modern Approach to Regression with R}}}", journal = j-J-STAT-SOFT, volume = "33", number = "BR-3", pages = "??--??", month = mar, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v033.b03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v33/b03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-03-16; Accepted 2010-03-16", } @Article{Phillips:2010:CSR, author = "Kem Phillips", title = "Code Snippet: {R} Functions to Symbolically Compute the Central Moments of the Multivariate Normal Distribution", journal = j-J-STAT-SOFT, volume = "33", number = "CS-1", pages = "??--??", month = feb, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v033.c01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v33/c01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-05-21; Accepted 2009-11-20", } @Article{Recchia:2010:CSC, author = "Anthony Recchia", title = "Code Snippet: Contiguity-Constrained Hierarchical Agglomerative Clustering Using {SAS}", journal = j-J-STAT-SOFT, volume = "33", number = "CS-2", pages = "??--??", month = feb, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v033.c02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v33/c02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-08-13; Accepted 2010-01-29", } @Article{Friedman:2010:RPG, author = "Jerome Friedman and Trevor Hastie and Rob Tibshirani", title = "Regularization Paths for Generalized Linear Models via Coordinate Descent", journal = j-J-STAT-SOFT, volume = "33", number = "1", pages = "??--??", month = feb, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v033.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v33/i01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-04-22; Accepted 2009-12-15", xxtitle = "Regularization Paths for Generalized Linear Models via Coordinate Descent", } @Article{Hadfield:2010:MMM, author = "Jarrod D. Hadfield", title = "{MCMC} Methods for Multi-Response Generalized Linear Mixed Models: The \pkg{MCMCglmm} {R} Package", journal = j-J-STAT-SOFT, volume = "33", number = "2", pages = "??--??", month = feb, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v033.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v33/i02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-02-18; Accepted 2009-12-21", xxtitle = "{MCMC} Methods for Multi-Response Generalized Linear Mixed Models: The {MCMCglmm} R Package", } @Article{Soetaert:2010:IMS, author = "Karline Soetaert and Thomas Petzoldt", title = "Inverse Modelling, Sensitivity and {Monte Carlo} Analysis in {R} Using Package \pkg{FME}", journal = j-J-STAT-SOFT, volume = "33", number = "3", pages = "??--??", month = feb, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v033.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v33/i03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-09-22; Accepted 2010-01-18", xxtitle = "Inverse Modelling, Sensitivity and Monte Carlo Analysis in R Using Package {FME}", } @Article{Chang:2010:CRP, author = "Fang Chang and Weiliang Qiu and Ruben H. Zamar and Ross Lazarus and Xiaogang Wang", title = "\pkg{clues}: An {R} Package for Nonparametric Clustering Based on Local Shrinking", journal = j-J-STAT-SOFT, volume = "33", number = "4", pages = "??--??", month = feb, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v033.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v33/i04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-03-26; Accepted 2010-01-31", xxtitle = "clues : An R Package for Nonparametric Clustering Based on Local Shrinking", } @Article{Kugiumtzis:2010:MAT, author = "Dimitris Kugiumtzis and Alkiviadis Tsimpiris", title = "Measures of Analysis of Time Series ({MATS}): a {MATLAB} Toolkit for Computation of Multiple Measures on Time Series Data Bases", journal = j-J-STAT-SOFT, volume = "33", number = "5", pages = "??--??", month = feb, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v033.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v33/i05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-01-13; Accepted 2010-01-11", xxtitle = "Measures of Analysis of Time Series ( {MATS} ): A {MATLAB} Toolkit for Computation of Multiple Measures on Time Series Data Bases", } @Article{Gramacy:2010:CIS, author = "Robert B. Gramacy and Matthew Alan Taddy", title = "Categorical Inputs, Sensitivity Analysis, Optimization and Importance Tempering with \pkg{tgp} Version 2, an {R} Package for Treed {Gaussian} Process Models", journal = j-J-STAT-SOFT, volume = "33", number = "6", pages = "??--??", month = feb, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v033.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v33/i06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-01-17; Accepted 2009-12-23", xxtitle = "Categorical Inputs, Sensitivity Analysis, Optimization and Importance Tempering with tgp Version 2, an R Package for Treed Gaussian Process Models", } @Article{Kahm:2010:GFB, author = "Matthias Kahm and Guido Hasenbrink and Hella Lichtenberg-Frat{\'e} and Jost Ludwig and Maik Kschischo", title = "\pkg{grofit}: Fitting Biological Growth Curves with {R}", journal = j-J-STAT-SOFT, volume = "33", number = "7", pages = "??--??", month = feb, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v033.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v33/i07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-07-14; Accepted 2009-06-18", xxtitle = "grofit : Fitting Biological Growth Curves with R", } @Article{Zang:2010:SAC, author = "Yong Zang and Wing Kam Fung and Gang Zheng", title = "Simple Algorithms to Calculate Asymptotic Null Distributions of Robust Tests in Case-Control Genetic Association Studies in {R}", journal = j-J-STAT-SOFT, volume = "33", number = "8", pages = "??--??", month = feb, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v033.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v33/i08", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-05-05; Accepted 2009-11-10", xxtitle = "Simple Algorithms to Calculate Asymptotic Null Distributions of Robust Tests in Case-Control Genetic Association Studies in R", } @Article{Soetaert:2010:SDE, author = "Karline Soetaert and Thomas Petzoldt and R. Woodrow Setzer", title = "Solving Differential Equations in {R}: Package \pkg{deSolve}", journal = j-J-STAT-SOFT, volume = "33", number = "9", pages = "??--??", month = feb, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v033.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v33/i09", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-07-17; Accepted 2010-02-12", xxtitle = "Solving Differential Equations in R : Package {deSolve}", } @Article{Gromping:2010:ILE, author = "Ulrike Gr{\"o}mping", title = "Inference with Linear Equality and Inequality Constraints Using {R}: The Package \pkg{ic.infer}", journal = j-J-STAT-SOFT, volume = "33", number = "10", pages = "??--??", month = feb, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v033.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v33/i10", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-08-20; Accepted 2009-12-16", xxtitle = "Inference with Linear Equality and Inequality Constraints Using R : The Package ic.infer", } @Article{Hankin:2010:GDD, author = "Robin K. S. Hankin", title = "A Generalization of the {Dirichlet} Distribution", journal = j-J-STAT-SOFT, volume = "33", number = "11", pages = "??--??", month = feb, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v033.i11", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v33/i11", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-09-30; Accepted 2010-02-15", xxtitle = "A Generalization of the Dirichlet Distribution", } @Article{Wickham:2010:BRBa, author = "Hadley Wickham", title = "Book Review: {{\booktitle{Making Sense of Data II: A Practical Guide to Data Visualization, Advanced Data Mining Methods, and Applications}}}", journal = j-J-STAT-SOFT, volume = "34", number = "BR-1", pages = "??--??", month = apr, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v034.b01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v34/b01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-04-08; Accepted 2010-04-08", } @Article{Strobl:2010:BRB, author = "Carolin Strobl", title = "Book Review: {{\booktitle{Advances in Social Science Research Using R}}}", journal = j-J-STAT-SOFT, volume = "34", number = "BR-2", pages = "??--??", month = apr, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v034.b02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v34/b02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-04-13; Accepted 2010-04-13", } @Article{Bowman:2010:BRB, author = "Adrian Bowman", title = "Book Review: {{\booktitle{Functional Data Analysis with R and MATLAB}}}", journal = j-J-STAT-SOFT, volume = "34", number = "BR-3", pages = "??--??", month = apr, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v034.b03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/matlab.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v34/b03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-04-15; Accepted 2010-04-15", } @Article{Zeileis:2010:EMF, author = "Achim Zeileis and Yves Croissant", title = "Extended Model Formulas in {R}: Multiple Parts and Multiple Responses", journal = j-J-STAT-SOFT, volume = "34", number = "1", pages = "??--??", month = apr, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v034.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v34/i01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-09-23; Accepted 2010-03-23", xxtitle = "Extended Model Formulas in R : Multiple Parts and Multiple Responses", } @Article{Cribari-Neto:2010:BRR, author = "Francisco Cribari-Neto and Achim Zeileis", title = "Beta Regression in {R}", journal = j-J-STAT-SOFT, volume = "34", number = "2", pages = "??--??", month = apr, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v034.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v34/i02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-12-14; Accepted 2010-03-14", xxtitle = "Beta Regression in R", } @Article{Sheng:2010:BEM, author = "Yanyan Sheng", title = "{Bayesian} Estimation of {MIRT} Models with General and Specific Latent Traits in {MATLAB}", journal = j-J-STAT-SOFT, volume = "34", number = "3", pages = "??--??", month = apr, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v034.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v34/i03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-10-30; Accepted 2010-03-26", xxtitle = "Bayesian Estimation of {MIRT} Models with General and Specific Latent Traits in {MATLAB}", } @Article{Almiron:2010:NAS, author = "Marcelo G. Almiron and Bruno Lopes and Alyson L. C. Oliveira and Antonio C. Medeiros and Alejandro C. Frery", title = "On the Numerical Accuracy of Spreadsheets", journal = j-J-STAT-SOFT, volume = "34", number = "4", pages = "??--??", month = apr, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v034.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v34/i04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-12-11; Accepted 2010-01-31", xxtitle = "On the Numerical Accuracy of Spreadsheets", } @Article{Pateiro-Lopez:2010:GCH, author = "Beatriz Pateiro-L{\'o}pez and Alberto Rodr{\'\i}guez-Casal", title = "Generalizing the Convex Hull of a Sample: The {R} Package \pkg{alphahull}", journal = j-J-STAT-SOFT, volume = "34", number = "5", pages = "??--??", month = apr, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v034.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v34/i05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-04-03; Accepted 2009-07-07", xxtitle = "Generalizing the Convex Hull of a Sample: The R Package alphahull", } @Article{Boik:2010:RPA, author = "John C. Boik and Balasubramanian Narasimhan", title = "An {R} Package for Assessing Drug Synergism\slash Antagonism", journal = j-J-STAT-SOFT, volume = "34", number = "6", pages = "??--??", month = apr, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v034.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v34/i06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-10-03; Accepted 2010-01-27", xxtitle = "An R Package for Assessing Drug Synergism/Antagonism", } @Article{Archer:2010:RRP, author = "Kellie J. Archer", title = "\pkg{rpartOrdinal}: An {R} Package for Deriving a Classification Tree for Predicting an Ordinal Response", journal = j-J-STAT-SOFT, volume = "34", number = "7", pages = "??--??", month = apr, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v034.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v34/i07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-08-07; Accepted 2010-03-18", xxtitle = "{rpartOrdinal} : An R Package for Deriving a Classification Tree for Predicting an Ordinal Response", } @Article{Kuiper:2010:FPC, author = "Rebecca M. Kuiper and Irene Klugkist and Herbert Hoijtink", title = "A {Fortran 90} Program for Confirmatory Analysis of Variance", journal = j-J-STAT-SOFT, volume = "34", number = "8", pages = "??--??", month = may, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v034.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v34/i08", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-11-12; Accepted 2009-12-17", xxtitle = "A Fortran 90 Program for Confirmatory Analysis of Variance", } @Article{Kojadinovic:2010:MMD, author = "Ivan Kojadinovic and Jun Yan", title = "Modeling Multivariate Distributions with Continuous Margins Using the \pkg{copula} {R} Package", journal = j-J-STAT-SOFT, volume = "34", number = "9", pages = "??--??", month = may, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v034.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v34/i09", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-07-07; Accepted 2010-04-23", xxtitle = "Modeling Multivariate Distributions with Continuous Margins Using the copula R Package", } @Article{Leibovici:2010:STM, author = "Didier G. Leibovici", title = "Spatio-Temporal Multiway Data Decomposition Using Principal Tensor Analysis on $k$-Modes: The {R} Package \pkg{PTAk}", journal = j-J-STAT-SOFT, volume = "34", number = "10", pages = "??--??", month = may, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v034.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v34/i10", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-05-08; Accepted 2009-08-19", xxtitle = "Spatio-Temporal Multiway Decompositions Using Principal Tensor Analysis on k -Modes: The R Package {PTAk}", } @Article{Chausse:2010:CGM, author = "Pierre Chauss{\'e}", title = "Computing Generalized Method of Moments and Generalized Empirical Likelihood with {R}", journal = j-J-STAT-SOFT, volume = "34", number = "11", pages = "??--??", month = may, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v034.i11", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v34/i11", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-08-26; Accepted 2010-01-29", xxtitle = "Computing Generalized Method of Moments and Generalized Empirical Likelihood with R", } @Article{Calcagno:2010:GRP, author = "Vincent Calcagno and Claire de Mazancourt", title = "\pkg{glmulti}: An {R} Package for Easy Automated Model Selection with (Generalized) Linear Models", journal = j-J-STAT-SOFT, volume = "34", number = "12", pages = "??--??", month = may, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v034.i12", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v34/i12", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-06-19; Accepted 2010-01-29", xxtitle = "glmulti : An R Package for Easy Automated Model Selection with (Generalized) Linear Models", } @Article{Valero-Mora:2010:BRB, author = "Pedro M. Valero-Mora", title = "Book Review: {{\booktitle{\pkg{ggplot2}: Elegant Graphics for Data Analysis}}}", journal = j-J-STAT-SOFT, volume = "35", number = "BR-1", pages = "??--??", month = jul, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v035.b01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v35/b01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-07-29; Accepted 2010-07-29", } @Article{Dhand:2010:CSU, author = "Navneet K. Dhand", title = "Code Snippet: {UniLogistic}: a {SAS} Macro for Descriptive and Univariable Logistic Regression Analyses", journal = j-J-STAT-SOFT, volume = "35", number = "CS-1", pages = "??--??", month = jul, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v035.c01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v35/c01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-02-06; Accepted 2010-04-18", } @Article{Xia:2010:CSP, author = "Xiao-Qin Xia and Michael McClelland and Yipeng Wang", title = "Code Snippet: \pkg{PypeR}, a {Python} Package for Using {R} in {Python}", journal = j-J-STAT-SOFT, volume = "35", number = "CS-2", pages = "??--??", month = jul, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v035.c02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v35/c02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-10-23; Accepted 2010-03-23", } @Article{Piras:2010:SSM, author = "Gianfranco Piras", title = "\pkg{sphet}: Spatial Models with Heteroskedastic Innovations in {R}", journal = j-J-STAT-SOFT, volume = "35", number = "1", pages = "??--??", month = jun, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v035.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v35/i01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-10-26; Accepted 2010-03-31", xxtitle = "sphet : Spatial Models with Heteroskedastic Innovations in R", } @Article{Kim:2010:PQS, author = "Hanjoo Kim and Justine Shults", title = "\pkg{{\%QLS}} {SAS} Macro: a {SAS} Macro for Analysis of Correlated Data Using Quasi-Least Squares", journal = j-J-STAT-SOFT, volume = "35", number = "2", pages = "??--??", month = jul, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v035.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v35/i02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-08-01; Accepted 2009-01-05", xxtitle = "{\%}{QLS} {SAS} Macro: A {SAS} Macro for Analysis of Correlated Data Using Quasi-Least Squares", } @Article{Scutari:2010:LBN, author = "Marco Scutari", title = "Learning {Bayesian} Networks with the \pkg{bnlearn} {R} Package", journal = j-J-STAT-SOFT, volume = "35", number = "3", pages = "??--??", month = jul, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v035.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v35/i03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-09-30; Accepted 2010-05-13", xxtitle = "Learning Bayesian Networks with the bnlearn R Package", } @Article{Patil:2010:PBS, author = "Anand Patil and David Huard and Christopher J. Fonnesbeck", title = "\pkg{PyMC}: {Bayesian} Stochastic Modelling in {Python}", journal = j-J-STAT-SOFT, volume = "35", number = "4", pages = "??--??", month = jul, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v035.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v35/i04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-12-22; Accepted 2010-01-22", xxtitle = "{PyMC} : Bayesian Stochastic Modelling in Python", } @Article{Hahsler:2010:REM, author = "Michael Hahsler and Margaret H. Dunham", title = "\pkg{rEMM}: Extensible {Markov} Model for Data Stream Clustering in {R}", journal = j-J-STAT-SOFT, volume = "35", number = "5", pages = "??--??", month = jul, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v035.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v35/i05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-05-26; Accepted 2010-05-10", xxtitle = "{rEMM} : Extensible Markov Model for Data Stream Clustering in R", } @Article{Hu:2010:COD, author = "Jiaqiao Hu and Wei Zhu and Yi Su and Weng Kee Wong", title = "Controlled Optimal Design Program for the Logit Dose Response Model", journal = j-J-STAT-SOFT, volume = "35", number = "6", pages = "??--??", month = jul, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v035.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v35/i06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-12-04; Accepted 2009-11-20", xxtitle = "Controlled Optimal Design Program for the Logit Dose Response Model", } @Article{Santana:2010:MMP, author = "Roberto Santana and Concha Bielza and Pedro Larra{\~n}aga and Jose A. Lozano and Carlos Echegoyen and Alexander Mendiburu and Rub{\'e}n Arma{\~n}anzas and Siddartha Shakya", title = "\pkg{Mateda-2.0}: a {MATLAB} Package for the Implementation and Analysis of Estimation of Distribution Algorithms", journal = j-J-STAT-SOFT, volume = "35", number = "7", pages = "??--??", month = jul, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v035.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v35/i07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-04-15; Accepted 2009-12-17", xxtitle = "Mateda-2.0 : A {MATLAB} Package for the Implementation and Analysis of Estimation of Distribution Algorithms", } @Article{Harte:2010:PRP, author = "David Harte", title = "\pkg{PtProcess}: An {R} Package for Modelling Marked Point Processes Indexed by Time", journal = j-J-STAT-SOFT, volume = "35", number = "8", pages = "??--??", month = jul, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v035.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v35/i08", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-06-11; Accepted 2010-05-03", xxtitle = "{PtProcess} : An R Package for Modelling Marked Point Processes Indexed by Time", } @Article{Rizopoulos:2010:JRP, author = "Dimitris Rizopoulos", title = "\pkg{JM}: An {R} Package for the Joint Modelling of Longitudinal and Time-to-Event Data", journal = j-J-STAT-SOFT, volume = "35", number = "9", pages = "??--??", month = jul, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v035.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v35/i09", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-08-31; Accepted 2010-07-07", xxtitle = "{JM} : An R Package for the Joint Modelling of Longitudinal and Time-to-Event Data", } @Article{Kohl:2010:RPD, author = "Matthias Kohl and Peter Ruckdeschel", title = "{R} Package \pkg{distrMod}: {S4} Classes and Methods for Probability Models", journal = j-J-STAT-SOFT, volume = "35", number = "10", pages = "??--??", month = jul, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v035.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v35/i10", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-04-07; Accepted 2010-04-19", xxtitle = "R Package {distrMod} : S 4 Classes and Methods for Probability Models", } @Article{Liu:2010:ICR, author = "Hai Liu and Kung-Sik Chan", title = "Introducing {COZIGAM}: An {R} Package for Unconstrained and Constrained Zero-Inflated Generalized Additive Model Analysis", journal = j-J-STAT-SOFT, volume = "35", number = "11", pages = "??--??", month = jul, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v035.i11", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v35/i11", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-02-25; Accepted 2009-07-13", xxtitle = "Introducing {COZIGAM} : An R Package for Unconstrained and Constrained Zero-Inflated Generalized Additive Model Analysis", } @Article{Weeks:2010:PRP, author = "Jonathan P. Weeks", title = "\pkg{plink}: An {R} Package for Linking Mixed-Format Tests Using {IRT}-Based Methods", journal = j-J-STAT-SOFT, volume = "35", number = "12", pages = "??--??", month = jul, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v035.i12", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v35/i12", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-09-30; Accepted 2010-05-10", xxtitle = "plink : An R Package for Linking Mixed-Format Tests Using {IRT}-Based Methods", } @Article{Hilbe:2010:BRBb, author = "Joseph Hilbe", title = "Book Review: {{\booktitle{Bayesian Analysis for Population Ecology}}}", journal = j-J-STAT-SOFT, volume = "36", number = "BR-1", pages = "??--??", month = aug, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v036.b01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:02:17 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v36/b01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-08-08; Accepted 2010-08-08", } @Article{Leong:2010:BRB, author = "Chee Kian Leong", title = "Book Review: {{\booktitle{R in a Nutshell}}}", journal = j-J-STAT-SOFT, volume = "36", number = "BR-2", pages = "??--??", month = aug, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v036.b02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:02:17 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v36/b02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-08-19; Accepted 2010-08-19", } @Article{Wickham:2010:BRBb, author = "Hadley Wickham and Garrett Grolemund", title = "Book Review: {{\booktitle{Graphics for Statistics and Data Analysis with R}}}", journal = j-J-STAT-SOFT, volume = "36", number = "BR-3", pages = "??--??", month = sep, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v036.b03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:02:17 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v36/b03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-09-01; Accepted 2010-09-01", } @Article{Hilbe:2010:BRBa, author = "Joseph Hilbe", title = "Book Review: {{\booktitle{Introduction to Scientific Programming and Scientific Simulation Using R}}}", journal = j-J-STAT-SOFT, volume = "36", number = "BR-4", pages = "??--??", month = sep, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v036.b04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:02:17 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v36/b04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-09-16; Accepted 2010-09-16", } @Article{Derquenne:2010:BRB, author = "Christian Derquenne", title = "Book Review: {{\booktitle{Regression Modeling: Methods, Theory, and Computation with SAS}}}", journal = j-J-STAT-SOFT, volume = "36", number = "BR-5", pages = "??--??", month = sep, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v036.b05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:02:17 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v36/b05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-09-21; Accepted 2010-09-21", } @Article{Sanchez:2010:BRBb, author = "Juana Sanchez", title = "Book Review: {{\booktitle{Data Analysis and Graphics Using R --- An Example-Based Approach}} (3rd Edition)}", journal = j-J-STAT-SOFT, volume = "36", number = "BR-6", pages = "??--??", month = sep, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v036.b06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:02:17 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v36/b06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-09-21; Accepted 2010-09-21", } @Article{Curtis:2010:CSB, author = "S. McKay Curtis", title = "Code Snippet: {BUGS} Code for Item Response Theory", journal = j-J-STAT-SOFT, volume = "36", number = "CS-1", pages = "??--??", month = aug, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v036.c01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:02:17 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v36/c01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-03-30; Accepted 2010-07-07", } @Article{Ferstl:2010:ZCY, author = "Robert Ferstl and Josef Hayden", title = "Zero-Coupon Yield Curve Estimation with the Package \pkg{termstrc}", journal = j-J-STAT-SOFT, volume = "36", number = "1", pages = "??--??", month = aug, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v036.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v36/i01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-01-21; Accepted 2010-06-06", xxtitle = "Zero-Coupon Yield Curve Estimation with the Package termstrc", } @Article{Fay:2010:EAW, author = "Michael P. Fay and Pamela A. Shaw", title = "Exact and Asymptotic Weighted Logrank Tests for Interval Censored Data: The \pkg{interval} {R} Package", journal = j-J-STAT-SOFT, volume = "36", number = "2", pages = "??--??", month = aug, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v036.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v36/i02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-04-02; Accepted 2010-03-18", xxtitle = "Exact and Asymptotic Weighted Logrank Tests for Interval Censored Data: The interval R Package", } @Article{Viechtbauer:2010:CMA, author = "Wolfgang Viechtbauer", title = "Conducting Meta-Analyses in {R} with the \pkg{metafor} Package", journal = j-J-STAT-SOFT, volume = "36", number = "3", pages = "??--??", month = aug, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v036.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v36/i03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-09-16; Accepted 2010-06-24", xxtitle = "Conducting Meta-Analyses in R with the metafor Package", } @Article{Brouste:2010:SMI, author = "Alexandre Brouste and Jacques Istas and Sophie Lambert-Lacroix", title = "On Simulation of Manifold Indexed Fractional {Gaussian} Fields", journal = j-J-STAT-SOFT, volume = "36", number = "4", pages = "??--??", month = aug, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v036.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v36/i04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-10-02; Accepted 2010-06-06", xxtitle = "On Simulation of Manifold Indexed Fractional Gaussian Fields", } @Article{Young:2010:TRP, author = "Derek S. Young", title = "\pkg{tolerance}: An {R} Package for Estimating Tolerance Intervals", journal = j-J-STAT-SOFT, volume = "36", number = "5", pages = "??--??", month = aug, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v036.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v36/i05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-07-01; Accepted 2010-06-24", xxtitle = "tolerance : An R Package for Estimating Tolerance Intervals", } @Article{Merl:2010:ARP, author = "Daniel Merl and Leah R. Johnson and Robert B. Gramacy and Marc Mangel", title = "\pkg{amei}: An {R} Package for the Adaptive Management of Epidemiological Interventions", journal = j-J-STAT-SOFT, volume = "36", number = "6", pages = "??--??", month = aug, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v036.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v36/i06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-06-22; Accepted 2010-06-24", xxtitle = "amei : An R Package for the Adaptive Management of Epidemiological Interventions", } @Article{Visser:2010:DRP, author = "Ingmar Visser and Maarten Speekenbrink", title = "\pkg{depmixS4}: An {R} Package for Hidden {Markov} Models", journal = j-J-STAT-SOFT, volume = "36", number = "7", pages = "??--??", month = aug, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v036.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Wed Aug 25 09:57:41 MDT 2010", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v36/i07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-08-19; Accepted 2010-06-21", xxtitle = "{depmixS}4 : An R Package for Hidden Markov Models", } @Article{Glaab:2010:VRP, author = "Enrico Glaab and Jonathan M. Garibaldi and Natalio Krasnogor", title = "\pkg{vrmlgen}: An {R} Package for {$3$D} Data Visualization on the {Web}", journal = j-J-STAT-SOFT, volume = "36", number = "8", pages = "??--??", month = aug, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v036.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:02:17 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v36/i08", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-11-25; Accepted 2010-06-06", xxtitle = "vrmlgen : An R Package for 3D Data Visualization on the Web", } @Article{Iam-on:2010:LMP, author = "Natthakan Iam-on and Simon Garrett", title = "\pkg{LinkCluE}: a {MATLAB} Package for Link-Based Cluster Ensembles", journal = j-J-STAT-SOFT, volume = "36", number = "9", pages = "??--??", month = aug, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v036.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:02:17 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v36/i09", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-05-11; Accepted 2010-06-24", xxtitle = "{LinkCluE} : A {MATLAB} Package for Link-Based Cluster Ensembles", } @Article{Furrer:2010:SSM, author = "Reinhard Furrer and Stephan R. Sain", title = "\pkg{spam}: a Sparse Matrix {R} Package with Emphasis on {MCMC} Methods for {Gaussian Markov} Random Fields", journal = j-J-STAT-SOFT, volume = "36", number = "10", pages = "??--??", month = sep, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v036.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:02:17 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v36/i10", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-07-04; Accepted 2010-05-31", xxtitle = "spam : A Sparse Matrix R Package with Emphasis on {MCMC} Methods for Gaussian Markov Random Fields", } @Article{Kursa:2010:FSB, author = "Miron B. Kursa and Witold R. Rudnicki", title = "Feature Selection with the \pkg{Boruta} Package", journal = j-J-STAT-SOFT, volume = "36", number = "11", pages = "??--??", month = sep, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v036.i11", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:02:17 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v36/i11", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-12-03; Accepted 2010-07-29", xxtitle = "Feature Selection with the Boruta Package", } @Article{Petris:2010:RPD, author = "Giovanni Petris", title = "An {R} Package for Dynamic Linear Models", journal = j-J-STAT-SOFT, volume = "36", number = "12", pages = "??--??", month = oct, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v036.i12", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:02:17 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v36/i12", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-04-20; Accepted 2010-03-05", xxtitle = "An R Package for Dynamic Linear Models", } @Article{Bowman:2010:ITT, author = "Adrian W. Bowman and Iain Gibson and Ewan Marian Scott and Ewan Crawford", title = "Interactive Teaching Tools for Spatial Sampling", journal = j-J-STAT-SOFT, volume = "36", number = "13", pages = "??--??", month = oct, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v036.i13", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:02:17 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v36/i13", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2008-12-15; Accepted 2010-02-03", xxtitle = "Interactive Teaching Tools for Spatial Sampling", } @Article{Hamilton:2010:BRB, author = "Cody Hamilton", title = "Book Review: {{\booktitle{Bayesian Adaptive Methods for Clinical Trials}}}", journal = j-J-STAT-SOFT, volume = "37", number = "BR-1", pages = "??--??", month = nov, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v037.b01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:00:59 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v37/b01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-11-08; Accepted 2010-11-08", } @Article{Gromping:2010:BRB, author = "Ulrike Gr{\"o}mping", title = "Book Review: {{\booktitle{Design and Analysis of Experiments with SAS}}}", journal = j-J-STAT-SOFT, volume = "37", number = "BR-2", pages = "??--??", month = dec, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v037.b02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:00:59 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v37/b02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-12-18; Accepted 2010-12-18", } @Article{Ooms:2010:BRB, author = "Jeroen Ooms", title = "Book Review: {{\booktitle{SAS and R}}}", journal = j-J-STAT-SOFT, volume = "37", number = "BR-3", pages = "??--??", month = dec, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v037.b03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:00:59 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v37/b03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2011-01-03; Accepted 2011-01-03", } @Article{Abreu:2010:HDG, author = "Gabriel C. G. Abreu and David Edwards and Rodrigo Labouriau", title = "High-Dimensional Graphical Model Search with the \pkg{gRapHD} {R} Package", journal = j-J-STAT-SOFT, volume = "37", number = "1", pages = "??--??", month = nov, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v037.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:00:59 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v37/i01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-08-19; Accepted 2010-08-23", xxtitle = "High-Dimensional Graphical Model Search with the {gRapHD} R Package", } @Article{Unlu:2010:PDR, author = "Ali {\"U}nl{\"u} and Anatol Sargin", title = "\pkg{DAKS}: An {R} Package for Data Analysis Methods in Knowledge Space Theory", journal = j-J-STAT-SOFT, volume = "37", number = "2", pages = "??--??", month = nov, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v037.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:00:59 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v37/i02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-03-22; Accepted 2010-08-20", xxtitle = "{DAKS} : An R Package for Data Analysis Methods in Knowledge Space Theory", } @Article{Alfons:2010:OOF, author = "Andreas Alfons and Matthias Templ and Peter Filzmoser", title = "An Object-Oriented Framework for Statistical Simulation: The {R} Package \pkg{simFrame}", journal = j-J-STAT-SOFT, volume = "37", number = "3", pages = "??--??", month = nov, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v037.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:00:59 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v37/i03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-08-31; Accepted 2010-09-24", xxtitle = "An Object-Oriented Framework for Statistical Simulation: The R Package {simFrame}", } @Article{Friendly:2010:PRM, author = "Michael Friendly", title = "{HE} Plots for Repeated Measures Designs", journal = j-J-STAT-SOFT, volume = "37", number = "4", pages = "??--??", month = nov, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v037.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:00:59 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v37/i04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-12-22; Accepted 2010-06-19", xxtitle = "{HE} Plots for Repeated Measures Designs", } @Article{Marley:2010:NSS, author = "Jennifer K. Marley and Matthew P. Wand", title = "Non-Standard Semiparametric Regression via {BRugs}", journal = j-J-STAT-SOFT, volume = "37", number = "5", pages = "??--??", month = nov, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v037.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:00:59 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v37/i05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-06-15; Accepted 2010-06-21", xxtitle = "Non-Standard Semiparametric Regression via {BRugs}", } @Article{Almquist:2010:UCS, author = "Zack W. Almquist", title = "{US} Census Spatial and Demographic Data in {R}: The \pkg{UScensus2000} Suite of Packages", journal = j-J-STAT-SOFT, volume = "37", number = "6", pages = "??--??", month = nov, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v037.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:00:59 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v37/i06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-01-29; Accepted 2010-10-04", xxtitle = "{US} Census Spatial and Demographic Data in R : The {UScensus}2000 Suite of Packages", } @Article{Moreira:2010:DRP, author = "Carla Moreira and Jacobo de U{\~n}a-{\'A}lvarez and Rosa M. Crujeiras", title = "\pkg{DTDA}: An {R} Package to Analyze Randomly Truncated Data", journal = j-J-STAT-SOFT, volume = "37", number = "7", pages = "??--??", month = nov, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v037.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:00:59 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v37/i07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-12-11; Accepted 2010-07-07", xxtitle = "{DTDA} : An R Package to Analyze Randomly Truncated Data", } @Article{Lawrence:2010:RGU, author = "Michael Lawrence and Duncan Temple Lang", title = "{RGtk2}: a Graphical User Interface Toolkit for {R}", journal = j-J-STAT-SOFT, volume = "37", number = "8", pages = "??--??", month = dec, year = "2010", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v037.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:00:59 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v37/i08", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-01-30; Accepted 2009-09-23", xxtitle = "{RGtk}2 : A Graphical User Interface Toolkit for R", } @Article{Putter:2011:SIA, author = "Hein Putter", title = "Special Issue about Competing Risks and Multi-State Models", journal = j-J-STAT-SOFT, volume = "38", number = "1", pages = "??--??", month = jan, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v038.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:00:59 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v38/i01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2011-01-03; Accepted 2011-01-03", xxtitle = "Special Issue about Competing Risks and Multi-State Models", } @Article{Scheike:2011:ACR, author = "Thomas H. Scheike and Mei-Jie Zhang", title = "Analyzing Competing Risk Data Using the {R} \pkg{timereg} Package", journal = j-J-STAT-SOFT, volume = "38", number = "2", pages = "??--??", month = jan, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v038.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:00:59 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v38/i02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-05-25; Accepted 2010-06-22", xxtitle = "Analyzing Competing Risk Data Using the R timereg Package", } @Article{Meira-Machado:2011:PPM, author = "Lu{\'\i}s Meira-Machado and Javier Roca-Pardi{\~n}as", title = "\pkg{p3state.msm}: Analyzing Survival Data from an Illness-Death Model", journal = j-J-STAT-SOFT, volume = "38", number = "3", pages = "??--??", month = jan, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v038.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:00:59 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v38/i03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-06-30; Accepted 2010-03-02", xxtitle = "p3state.msm : Analyzing Survival Data from an Illness-Death Model", } @Article{Allignol:2011:ETM, author = "Arthur Allignol and Martin Schumacher and Jan Beyersmann", title = "Empirical Transition Matrix of Multi-State Models: The \pkg{etm} Package", journal = j-J-STAT-SOFT, volume = "38", number = "4", pages = "??--??", month = jan, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v038.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:00:59 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v38/i04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-01-08; Accepted 2010-03-11", xxtitle = "Empirical Transition Matrix of Multi-State Models: The etm Package", } @Article{Plummer:2011:LRC, author = "Martyn Plummer and Bendix Carstensen", title = "{Lexis}: An {R} Class for Epidemiological Studies with Long-Term Follow-Up", journal = j-J-STAT-SOFT, volume = "38", number = "5", pages = "??--??", month = jan, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v038.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:00:59 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v38/i05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-02-09; Accepted 2010-09-16", xxtitle = "Lexis : An R Class for Epidemiological Studies with Long-Term Follow-Up", } @Article{Carstensen:2011:ULO, author = "Bendix Carstensen and Martyn Plummer", title = "Using {Lexis} Objects for Multi-State Models in {R}", journal = j-J-STAT-SOFT, volume = "38", number = "6", pages = "??--??", month = jan, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v038.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:00:59 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v38/i06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-02-09; Accepted 2010-09-16", xxtitle = "Using Lexis Objects for Multi-State Models in R", } @Article{deWreede:2011:MRP, author = "Liesbeth C. de Wreede and Marta Fiocco and Hein Putter", title = "\pkg{mstate}: An {R} Package for the Analysis of Competing Risks and Multi-State Models", journal = j-J-STAT-SOFT, volume = "38", number = "7", pages = "??--??", month = jan, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v038.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:00:59 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v38/i07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-01-17; Accepted 2010-08-20", xxtitle = "mstate : An R Package for the Analysis of Competing Risks and Multi-State Models", } @Article{Jackson:2011:MSM, author = "Christopher H. Jackson", title = "Multi-State Models for Panel Data: The \pkg{msm} Package for {R}", journal = j-J-STAT-SOFT, volume = "38", number = "8", pages = "??--??", month = jan, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v038.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Mon Feb 7 10:00:59 MST 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v38/i08", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-07-21; Accepted 2010-08-18", xxtitle = "Multi-State Models for Panel Data: The msm Package for R", } @Article{Christou:2011:BRB, author = "Nicolas Christou", title = "Book Review: {{\booktitle{Statistical Methods in e-Commerce Research}}}", journal = j-J-STAT-SOFT, volume = "39", number = "BR-1", pages = "??--??", month = mar, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v039.b01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:21:59 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v39/b01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2011-03-01; Accepted 2011-03-01", } @Article{Hoffmann:2011:CSP, author = "Thomas J. Hoffmann", title = "Code Snippet: Passing in Command Line Arguments and Parallel Cluster\slash Multicore Batching in {R} with \pkg{batch}", journal = j-J-STAT-SOFT, volume = "39", number = "CS-1", pages = "??--??", month = mar, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v039.c01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:21:59 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v39/c01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-12-16; Accepted 2010-08-09", } @Article{Beliakov:2011:CSF, author = "Gleb Beliakov", title = "Code Snippet: Fast Computation of Trimmed Means", journal = j-J-STAT-SOFT, volume = "39", number = "CS-2", pages = "??--??", month = mar, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v039.c02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:21:59 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v39/c02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-06-07; Accepted 2010-10-28", } @Article{Davies:2011:SAS, author = "Tilman M. Davies and Martin L. Hazelton and Jonathan C. Marshall", title = "\pkg{sparr}: Analyzing Spatial Relative Risk Using Fixed and Adaptive Kernel Density Estimation in {R}", journal = j-J-STAT-SOFT, volume = "39", number = "1", pages = "??--??", month = mar, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v039.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:21:59 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v39/i01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-05-02; Accepted 2010-08-10", xxtitle = "sparr : Analyzing Spatial Relative Risk Using Fixed and Adaptive Kernel Density Estimation in R", } @Article{Tusell:2011:KFR, author = "Fernando Tusell", title = "{Kalman} Filtering in {R}", journal = j-J-STAT-SOFT, volume = "39", number = "2", pages = "??--??", month = mar, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v039.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:21:59 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v39/i02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-01-12; Accepted 2010-08-17", xxtitle = "Kalman Filtering in R", } @Article{Cook:2011:LPL, author = "R. Dennis Cook and Liliana M. Forzani and Diego R. Tomassi", title = "{LDR}: a Package for Likelihood-Based Sufficient Dimension Reduction", journal = j-J-STAT-SOFT, volume = "39", number = "3", pages = "??--??", month = mar, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v039.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:21:59 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v39/i03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-08-27; Accepted 2010-09-11", xxtitle = "{LDR} : A Package for Likelihood-Based Sufficient Dimension Reduction", } @Article{OConnell:2011:HSM, author = "Jared O'Connell and S{\o}ren H{\o}jsgaard", title = "Hidden Semi {Markov} Models for Multiple Observation Sequences: The \pkg{mhsmm} Package for {R}", journal = j-J-STAT-SOFT, volume = "39", number = "4", pages = "??--??", month = mar, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v039.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:21:59 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v39/i04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-03-02; Accepted 2010-09-29", xxtitle = "Hidden Semi Markov Models for Multiple Observation Sequences: The mhsmm Package for R", } @Article{Simon:2011:RPC, author = "Noah Simon and Jerome H. Friedman and Trevor Hastie and Rob Tibshirani", title = "Regularization Paths for {Cox}'s {Proportional Hazards Model} via Coordinate Descent", journal = j-J-STAT-SOFT, volume = "39", number = "5", pages = "??--??", month = mar, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v039.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:21:59 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v39/i05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-06-15; Accepted 2010-10-02", xxtitle = "Regularization Paths for Cox's Proportional Hazards Model via Coordinate Descent", } @Article{Dumbgen:2011:PLC, author = "Lutz D{\"u}mbgen and Kaspar Rufibach", title = "\pkg{logcondens}: Computations Related to Univariate Log-Concave Density Estimation", journal = j-J-STAT-SOFT, volume = "39", number = "6", pages = "??--??", month = mar, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v039.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:21:59 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v39/i06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-12-11; Accepted 2010-10-06", xxtitle = "logcondens : Computations Related to Univariate Log-Concave Density Estimation", } @Article{Dinges:2011:OSA, author = "Gerlinde Dinges and Alexander Kowarik and Bernhard Meindl and Matthias Templ", title = "An Open Source Approach for Modern Teaching Methods: The Interactive {TGUI} System", journal = j-J-STAT-SOFT, volume = "39", number = "7", pages = "??--??", month = mar, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v039.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:21:59 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v39/i07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-11-19; Accepted 2010-04-23", xxtitle = "An Open Source Approach for Modern Teaching Methods: The Interactive {TGUI} System", } @Article{Choi:2011:LRP, author = "Seung W. Choi and Laura E. Gibbons and Paul K. Crane", title = "\pkg{lordif}: An {R} Package for Detecting Differential Item Functioning Using Iterative Hybrid Ordinal Logistic Regression\slash Item Response Theory and {Monte Carlo} Simulations", journal = j-J-STAT-SOFT, volume = "39", number = "8", pages = "??--??", month = mar, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v039.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:21:59 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v39/i08", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-02-02; Accepted 2010-10-23", xxtitle = "lordif : An R Package for Detecting Differential Item Functioning Using Iterative Hybrid Ordinal Logistic Regression/Item Response Theory and Monte Carlo Simulations", } @Article{Hofert:2011:NAC, author = "Marius Hofert and Martin M{\"a}chler", title = "Nested {Archimedean} Copulas Meet {R}: The \pkg{nacopula} Package", journal = j-J-STAT-SOFT, volume = "39", number = "9", pages = "??--??", month = mar, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v039.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:21:59 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v39/i09", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-07-01; Accepted 2010-11-15", xxtitle = "Nested Archimedean Copulas Meet R : The nacopula Package", } @Article{Wang:2011:DEM, author = "Xiao-Feng Wang and Bin Wang", title = "Deconvolution Estimation in Measurement Error Models: The {R} Package \pkg{decon}", journal = j-J-STAT-SOFT, volume = "39", number = "10", pages = "??--??", month = mar, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v039.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:21:59 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v39/i10", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-03-21; Accepted 2010-11-04", xxtitle = "Deconvolution Estimation in Measurement Error Models: The R Package decon", } @Article{Simard:2011:CTS, author = "Richard Simard and Pierre L'Ecuyer", title = "Computing the Two-Sided {Kolmogorov--Smirnov} Distribution", journal = j-J-STAT-SOFT, volume = "39", number = "11", pages = "1--18", month = mar, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v039.i11", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:21:59 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v39/i11", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-03-17; Accepted 2010-12-13", xxtitle = "Computing the Two-Sided Kolmogorov-Smirnov Distribution", } @Article{DeBoeck:2011:EIR, author = "Paul {De Boeck} and Marjan Bakker and Robert Zwitser and Michel Nivard and Abe Hofman and Francis Tuerlinckx and Ivailo Partchev", title = "The Estimation of Item Response Models with the \pkg{lmer} Function from the \pkg{lme4} Package in {R}", journal = j-J-STAT-SOFT, volume = "39", number = "12", pages = "??--??", month = mar, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v039.i12", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:21:59 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v39/i12", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-07-01; Accepted 2010-12-13", xxtitle = "The Estimation of Item Response Models with the lmer Function from the lme4 Package in R", } @Article{Molas:2011:HGL, author = "Marek Molas and Emmanuel Lesaffre", title = "Hierarchical Generalized Linear Models: The {R} Package \pkg{HGLMMM}", journal = j-J-STAT-SOFT, volume = "39", number = "13", pages = "??--??", month = mar, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v039.i13", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:21:59 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v39/i13", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-03-03; Accepted 2010-12-06", xxtitle = "Hierarchical Generalized Linear Models: The R Package {HGLMMM}", } @Article{Eddelbuettel:2011:BRB, author = "Dirk Eddelbuettel", title = "Book Review: {{\booktitle{R in a Nutshell}}}", journal = j-J-STAT-SOFT, volume = "40", number = "BR-1", pages = "??--??", month = apr, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v040.b01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:01 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v40/b01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2011-04-04; Accepted 2011-04-04", } @Article{Evans:2011:BRB, author = "Gary Evans", title = "Book Review: {{\booktitle{Exploratory Multivariate Analysis by Example Using R}}}", journal = j-J-STAT-SOFT, volume = "40", number = "BR-2", pages = "??--??", month = apr, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v040.b02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:01 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v40/b02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2011-04-20; Accepted 2011-04-20", } @Article{Howard:2011:BRB, author = "James P. Howard", title = "Book Review: {{\booktitle{R Cookbook}}}", journal = j-J-STAT-SOFT, volume = "40", number = "BR-3", pages = "??--??", month = apr, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v040.b03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:01 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v40/b03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2011-04-27; Accepted 2011-04-27", } @Article{Wickham:2011:SAC, author = "Hadley Wickham", title = "The Split-Apply-Combine Strategy for Data Analysis", journal = j-J-STAT-SOFT, volume = "40", number = "1", pages = "??--??", month = apr, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v040.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:01 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v40/i01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-09-24; Accepted 2010-12-27", xxtitle = "The Split-Apply-Combine Strategy for Data Analysis", } @Article{Wickham:2011:TRP, author = "Hadley Wickham and Dianne Cook and Heike Hofmann and Andreas Buja", title = "\pkg{tourr}: An {R} Package for Exploring Multivariate Data with Projections", journal = j-J-STAT-SOFT, volume = "40", number = "2", pages = "??--??", month = apr, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v040.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:01 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v40/i02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-01-31; Accepted 2010-10-07", xxtitle = "tourr : An R Package for Exploring Multivariate Data with Projections", } @Article{Grolemund:2011:DTM, author = "Garrett Grolemund and Hadley Wickham", title = "Dates and Times Made Easy with \pkg{lubridate}", journal = j-J-STAT-SOFT, volume = "40", number = "3", pages = "??--??", month = apr, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v040.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:01 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v40/i03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-07-23; Accepted 2010-11-29", xxtitle = "Dates and Times Made Easy with lubridate", } @Article{Gabadinho:2011:AVS, author = "Alexis Gabadinho and Gilbert Ritschard and Nicolas S. M{\"u}ller and Matthias Studer", title = "Analyzing and Visualizing State Sequences in {R} with \pkg{TraMineR}", journal = j-J-STAT-SOFT, volume = "40", number = "4", pages = "??--??", month = apr, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v040.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:01 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v40/i04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-08-12; Accepted 2011-01-03", xxtitle = "Analyzing and Visualizing State Sequences in R with {TraMineR}", } @Article{Jara:2011:DBS, author = "Alejandro Jara and Timothy E. Hanson and Fernando A. Quintana and Peter M{\"u}ller and Gary L. Rosner", title = "\pkg{DPpackage}: {Bayesian} Semi- and Nonparametric Modeling in {R}", journal = j-J-STAT-SOFT, volume = "40", number = "5", pages = "??--??", month = apr, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v040.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:01 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v40/i05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-10-28; Accepted 2010-12-27", xxtitle = "{DPpackage} : Bayesian Semi- and Nonparametric Modeling in R", } @Article{Mullen:2011:DRP, author = "Katharine M. Mullen and David Ardia and David L. Gil and Donald Windover and James Cline", title = "\pkg{DEoptim}: An {R} Package for Global Optimization by Differential Evolution", journal = j-J-STAT-SOFT, volume = "40", number = "6", pages = "??--??", month = apr, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v040.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:01 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v40/i06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-03-27; Accepted 2011-02-04", xxtitle = "{DEoptim} : An R Package for Global Optimization by Differential Evolution", } @Article{Taylor:2011:RPW, author = "Julian Taylor and Arunas Verbyla", title = "{R} Package wgaim: {QTL} Analysis in Bi-Parental Populations Using Linear Mixed Models", journal = j-J-STAT-SOFT, volume = "40", number = "7", pages = "??--??", month = apr, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v040.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:01 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v40/i07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-07-13; Accepted 2011-02-25", xxtitle = "R Package wgaim : {QTL} Analysis in Bi-Parental Populations Using Linear Mixed Models", } @Article{Eddelbuettel:2011:RSR, author = "Dirk Eddelbuettel and Romain Fran{\c{c}}ois", title = "\pkg{Rcpp}: Seamless {R} and {C++} Integration", journal = j-J-STAT-SOFT, volume = "40", number = "8", pages = "??--??", month = apr, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v040.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:01 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v40/i08", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-11-15; Accepted 2011-03-21", xxtitle = "Rcpp : Seamless R and C$\mathplus\mathplus$ Integration", } @Article{Wang:2011:SRP, author = "Ji-Ping Wang", title = "{SPECIES}: An {R} Package for Species Richness Estimation", journal = j-J-STAT-SOFT, volume = "40", number = "9", pages = "??--??", month = apr, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v040.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:01 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v40/i09", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-03-11; Accepted 2011-03-27", xxtitle = "{SPECIES} : An R Package for Species Richness Estimation", } @Article{Culp:2011:SSS, author = "Mark Culp", title = "\pkg{spa}: Semi-Supervised Semi-Parametric Graph-Based Estimation in {R}", journal = j-J-STAT-SOFT, volume = "40", number = "10", pages = "??--??", month = apr, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v040.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:01 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v40/i10", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-07-23; Accepted 2010-01-11", xxtitle = "spa : A Semi-Supervised R Package for Semi-Parametric Graph-Based Estimation", } @Article{Zarraga:2011:SAP, author = "Amaya Z{\'a}rraga and Beatriz Goitisolo", title = "Simultaneous Analysis in {S-PLUS}: The \pkg{SimultAn} Package", journal = j-J-STAT-SOFT, volume = "40", number = "11", pages = "??--??", month = apr, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v040.i11", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:01 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v40/i11", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-07-22; Accepted 2011-04-13", xxtitle = "Simultaneous Analysis in S-{PLUS} : The {SimultAn} Package", } @Article{Scharpf:2011:URP, author = "Robert B. Scharpf and Rafael A. Irizarry and Matthew E. Ritchie and Benilton Carvalho and Ingo Ruczinski", title = "Using the {R} Package \pkg{crlmm} for Genotyping and Copy Number Estimation", journal = j-J-STAT-SOFT, volume = "40", number = "12", pages = "??--??", month = may, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v040.i12", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:01 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v40/i12", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-09-09; Accepted 2011-04-18", xxtitle = "Using the R Package crlmm for Genotyping and Copy Number Estimation", } @Article{Grun:2011:PTR, author = "Bettina Gr{\"u}n and Kurt Hornik", title = "\pkg{topicmodels}: An {R} Package for Fitting Topic Models", journal = j-J-STAT-SOFT, volume = "40", number = "13", pages = "??--??", month = may, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v040.i13", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:01 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v40/i13", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-09-23; Accepted 2011-04-26", xxtitle = "topicmodels : An R Package for Fitting Topic Models", } @Article{Causeur:2011:FAM, author = "David Causeur and Chloe Friguet and Magalie Houee-Bigot and Maela Kloareg", title = "Factor Analysis for Multiple Testing ({FAMT}): An {R} Package for Large-Scale Significance Testing under Dependence", journal = j-J-STAT-SOFT, volume = "40", number = "14", pages = "??--??", month = may, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v040.i14", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:01 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v40/i14", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-07-09; Accepted 2011-04-01", xxtitle = "Factor Analysis for Multiple Testing ( {FAMT} ): An R Package for Large-Scale Significance Testing under Dependence", } @Article{Commandeur:2011:SSS, author = "Jacques J. F. Commandeur and Siem Jan Koopman and Marius Ooms", title = "Statistical Software for State Space Methods", journal = j-J-STAT-SOFT, volume = "41", number = "1", pages = "??--??", month = may, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v041.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v41/i01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-08-22; Accepted 2010-12-20", xxtitle = "Statistical Software for State Space Methods", } @Article{Mendelssohn:2011:SSS, author = "Roy Mendelssohn", title = "The {STAMP} Software for State Space Models", journal = j-J-STAT-SOFT, volume = "41", number = "2", pages = "??--??", month = may, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v041.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v41/i02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-01-15; Accepted 2010-12-20", xxtitle = "The {STAMP} Software for State Space Models", } @Article{Pelagatti:2011:SSM, author = "Matteo M. Pelagatti", title = "State Space Methods in \pkg{Ox\slash SsfPack}", journal = j-J-STAT-SOFT, volume = "41", number = "3", pages = "??--??", month = may, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v041.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v41/i03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-01-15; Accepted 2010-11-11", xxtitle = "State Space Methods in Ox / {SsfPack}", } @Article{Petris:2011:SSM, author = "Giovanni Petris and Sonia Petrone", title = "State Space Models in {R}", journal = j-J-STAT-SOFT, volume = "41", number = "4", pages = "??--??", month = may, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v041.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v41/i04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-01-26; Accepted 2010-11-10", xxtitle = "State Space Models in R", } @Article{Zivot:2011:SSM, author = "Eric W. Zivot", title = "State Space Modeling Using \pkg{SsfPack} in {S+FinMetrics 3.0}", journal = j-J-STAT-SOFT, volume = "41", number = "5", pages = "??--??", month = may, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v041.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v41/i05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-01-25; Accepted 2010-11-18", xxtitle = "State Space Modeling Using {SsfPack} in S$\mathplus${FinMetrics} 3.0", } @Article{Peng:2011:SSM, author = "Jyh-Ying Peng and John A. D. Aston", title = "The State Space Models Toolbox for {MATLAB}", journal = j-J-STAT-SOFT, volume = "41", number = "6", pages = "??--??", month = may, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v041.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v41/i06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-01-18; Accepted 2010-11-17", xxtitle = "The State Space Models Toolbox for {MATLAB}", } @Article{Bell:2011:RFP, author = "William R. Bell", title = "\pkg{REGCMPNT} --- a {Fortran} Program for Regression Models with {ARIMA} Component Errors", journal = j-J-STAT-SOFT, volume = "41", number = "7", pages = "??--??", month = may, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v041.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v41/i07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-02-04; Accepted 2010-11-26", xxtitle = "{REGCMPNT} - A Fortran Program for Regression Models with {ARIMA} Component Errors", } @Article{VandenBossche:2011:FSS, author = "Filip A. M. {Van den Bossche}", title = "Fitting State Space Models with \pkg{EViews}", journal = j-J-STAT-SOFT, volume = "41", number = "8", pages = "??--??", month = may, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v041.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v41/i08", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-02-07; Accepted 2010-12-08", xxtitle = "Fitting State Space Models with {EViews}", } @Article{Doan:2011:SSM, author = "Thomas Doan", title = "State Space Methods in \pkg{RATS}", journal = j-J-STAT-SOFT, volume = "41", number = "9", pages = "??--??", month = may, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v041.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v41/i09", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-02-01; Accepted 2010-12-08", xxtitle = "State Space Methods in {RATS}", } @Article{Drukker:2011:SSM, author = "David M. Drukker and Richard B. Gates", title = "State Space Methods in \pkg{Stata}", journal = j-J-STAT-SOFT, volume = "41", number = "10", pages = "??--??", month = may, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v041.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v41/i10", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-01-15; Accepted 2010-09-29", xxtitle = "State Space Methods in Stata", } @Article{Lucchetti:2011:SSM, author = "Riccardo Lucchetti", title = "State Space Methods in \pkg{gretl}", journal = j-J-STAT-SOFT, volume = "41", number = "11", pages = "??--??", month = may, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v041.i11", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v41/i11", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-01-13; Accepted 2010-12-01", xxtitle = "State Space Methods in gretl", } @Article{Selukar:2011:SSM, author = "Rajesh Selukar", title = "State Space Modeling Using {SAS}", journal = j-J-STAT-SOFT, volume = "41", number = "12", pages = "??--??", month = may, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v041.i12", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v41/i12", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2009-12-23; Accepted 2010-08-17", xxtitle = "State Space Modeling Using {SAS}", } @Article{Bos:2011:BAU, author = "Charles S. Bos", title = "A {Bayesian} Analysis of Unobserved Component Models Using \pkg{Ox}", journal = j-J-STAT-SOFT, volume = "41", number = "13", pages = "??--??", month = may, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v041.i13", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Fri May 13 18:22:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v41/i13", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-01-29; Accepted 2010-11-29", xxtitle = "A Bayesian Analysis of Unobserved Component Models Using Ox", } @Article{Bailey:2011:CSI, author = "Delia Bailey and Jonathan N. Katz", title = "Code Snippet: Implementing Panel-Corrected Standard Errors in {R}: The \pkg{pcse} Package", journal = j-J-STAT-SOFT, volume = "42", number = "CS-1", pages = "??--??", month = jun, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v042.c01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Oct 2 07:04:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v42/c01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-01-22; Accepted 2007-10-16", } @Article{Altman:2011:ISV, author = "Micah Altman and John Fox and Simon Jackman and Achim Zeileis", title = "An Introduction to the {Special Volume on 'Political Methodology'}", journal = j-J-STAT-SOFT, volume = "42", number = "1", pages = "??--??", month = jun, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v042.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Oct 2 07:04:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v42/i01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2011-05-21; Accepted 2011-05-21", xxtitle = "An Introduction to the Special Volume on {"}Political Methodology{"}", } @Article{Altman:2011:NWL, author = "Micah Altman and Simon Jackman", title = "Nineteen Ways of Looking at Statistical Software", journal = j-J-STAT-SOFT, volume = "42", number = "2", pages = "??--??", month = jun, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v042.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Oct 2 07:04:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v42/i02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-02-07; Accepted 2008-04-30", xxtitle = "Nineteen Ways of Looking at Statistical Software", } @Article{Wand:2011:ASA, author = "Jonathan Wand and Gary King and Olivia Lau", title = "\pkg{anchors}: Software for Anchoring Vignette Data", journal = j-J-STAT-SOFT, volume = "42", number = "3", pages = "??--??", month = jun, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v042.i03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Oct 2 07:04:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v42/i03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-02-09; Accepted 2008-04-27", xxtitle = "anchors : Software for Anchoring Vignette Data", } @Article{Altman:2011:BBL, author = "Micah Altman and Michael P. McDonald", title = "{BARD}: Better Automated Redistricting", journal = j-J-STAT-SOFT, volume = "42", number = "4", pages = "??--??", month = jun, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v042.i04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Oct 2 07:04:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v42/i04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-03-01; Accepted 2008-04-27", xxtitle = "{BARD} : Better Automated Redistricting", } @Article{Imai:2011:ERP, author = "Kosuke Imai and Ying Lu and Aaron Strauss", title = "\pkg{eco}: {R} Package for Ecological Inference in $ 2 \times 2 $ Tables", journal = j-J-STAT-SOFT, volume = "42", number = "5", pages = "??--??", month = jun, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v042.i05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Oct 2 07:04:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v42/i05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-02-06; Accepted 2007-06-18", xxtitle = "eco : R Package for Ecological Inference in 2 {\texttimes} 2 Tables", } @Article{Ocana:2011:ISA, author = "Francisco A. Oca{\~n}a and Pablo O{\~n}ate", title = "{IndElec}: a Software for Analyzing Party Systems and Electoral Systems", journal = j-J-STAT-SOFT, volume = "42", number = "6", pages = "??--??", month = jun, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v042.i06", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Oct 2 07:04:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v42/i06", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-02-05; Accepted 2007-08-07", xxtitle = "{IndElec} : A Software for Analyzing Party Systems and Electoral Systems", } @Article{Sekhon:2011:MPS, author = "Jasjeet S. Sekhon", title = "Multivariate and Propensity Score Matching Software with Automated Balance Optimization: The Matching package for {R}", journal = j-J-STAT-SOFT, volume = "42", number = "7", pages = "??--??", month = jun, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v042.i07", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Oct 2 07:04:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v42/i07", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-02-07; Accepted 2007-06-16", xxtitle = "Multivariate and Propensity Score Matching Software with Automated Balance Optimization: The Matching Package for R", } @Article{Ho:2011:MNP, author = "Daniel E. Ho and Kosuke Imai and Gary King and Elizabeth A. Stuart", title = "{MatchIt}: Nonparametric Preprocessing for Parametric Causal Inference", journal = j-J-STAT-SOFT, volume = "42", number = "8", pages = "??--??", month = jun, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v042.i08", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Oct 2 07:04:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v42/i08", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2006-07-28; Accepted 2008-01-17", xxtitle = "{MatchIt} : Nonparametric Preprocessing for Parametric Causal Inference", } @Article{Martin:2011:MMC, author = "Andrew D. Martin and Kevin M. Quinn and Jong Hee Park", title = "{MCMCpack}: {Markov} Chain {Monte Carlo} in {R}", journal = j-J-STAT-SOFT, volume = "42", number = "9", pages = "??--??", month = jun, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v042.i09", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Oct 2 07:04:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v42/i09", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-01-15; Accepted 2007-11-24", xxtitle = "{MCMCpack} : Markov Chain Monte Carlo in R", } @Article{Linzer:2011:PRP, author = "Drew A. Linzer and Jeffrey B. Lewis", title = "\pkg{poLCA}: An {R} Package for Polytomous Variable Latent Class Analysis", journal = j-J-STAT-SOFT, volume = "42", number = "10", pages = "??--??", month = jun, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v042.i10", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Oct 2 07:04:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v42/i10", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-02-15; Accepted 2007-08-02", xxtitle = "{poLCA} : An R Package for Polytomous Variable Latent Class Analysis", } @Article{Mebane:2011:GOU, author = "Walter R. {Mebane, Jr.} and Jasjeet S. Sekhon", title = "Genetic Optimization Using Derivatives: The \pkg{rgenoud} Package for {R}", journal = j-J-STAT-SOFT, volume = "42", number = "11", pages = "??--??", month = jun, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v042.i11", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Oct 2 07:04:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v42/i11", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-02-11; Accepted 2007-11-21", xxtitle = "Genetic Optimization Using Derivatives: The rgenoud Package for R", } @Article{Pemstein:2011:SSL, author = "Daniel Pemstein and Kevin M. Quinn and Andrew D. Martin", title = "The {Scythe Statistical Library}: An Open Source {C++} Library for Statistical Computation", journal = j-J-STAT-SOFT, volume = "42", number = "12", pages = "??--??", month = jun, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v042.i12", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Oct 2 07:04:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v42/i12", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-01-15; Accepted 2007-08-15", xxtitle = "The Scythe Statistical Library: An Open Source C$\mathplus\mathplus$ Library for Statistical Computation", } @Article{Abadie:2011:SRP, author = "Alberto Abadie and Alexis Diamond and Jens Hainmueller", title = "{Synth}: An {R} Package for Synthetic Control Methods in Comparative Case Studies", journal = j-J-STAT-SOFT, volume = "42", number = "13", pages = "??--??", month = jun, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v042.i13", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Oct 2 07:04:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v42/i13", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-02-01; Accepted 2007-12-17", xxtitle = "Synth : An R Package for Synthetic Control Methods in Comparative Case Studies", } @Article{Poole:2011:SRC, author = "Keith Poole and Jeffrey Lewis and James Lo and Royce Carroll", title = "Scaling Roll Call Votes with \pkg{wnominate} in {R}", journal = j-J-STAT-SOFT, volume = "42", number = "14", pages = "??--??", month = jun, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v042.i14", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sun Oct 2 07:04:03 MDT 2011", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v42/i14", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2007-02-01; Accepted 2007-08-07", xxtitle = "Scaling Roll Call Votes with wnominate in R", } @Article{Shentu:2011:BRB, author = "Yue Shentu", title = "Book Review: {{\booktitle{Clinical Trial Data Analysis Using R}}}", journal = j-J-STAT-SOFT, volume = "43", number = "BR-1", pages = "??--??", month = jul, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v043.b01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Feb 25 18:33:22 MST 2012", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v43/b01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2011-07-18; Accepted 2011-07-18", } @Article{Demirtas:2011:BRB, author = "Hakan Demirtas", title = "Book Review: {{\booktitle{Statistical Simulation: Power Method Polynomials and Other Transformations}}}", journal = j-J-STAT-SOFT, volume = "43", number = "BR-2", pages = "??--??", month = sep, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v043.b02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Feb 25 18:33:22 MST 2012", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v43/b02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2011-09-11; Accepted 2011-09-11", } @Article{Cook:2011:BRB, author = "Dianne Cook and Heike Hofmann", title = "Book Review: {{\booktitle{R Graphics}} (2nd Edition)}", journal = j-J-STAT-SOFT, volume = "43", number = "BR-3", pages = "??--??", month = sep, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v043.b03", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Feb 25 18:33:22 MST 2012", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v43/b03", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2011-09-13; Accepted 2011-09-13", } @Article{Sanchez:2011:BRB, author = "Juana Sanchez", title = "Book Review: {{\booktitle{Hidden Markov Models for Time Series --- An Introduction Using R}}}", journal = j-J-STAT-SOFT, volume = "43", number = "BR-4", pages = "??--??", month = oct, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v043.b04", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Feb 25 18:33:22 MST 2012", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v43/b04", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2011-10-04; Accepted 2011-10-04", } @Article{Gromping:2011:BRB, author = "Ulrike Gr{\"o}mping", title = "Book Review: {{\booktitle{Optimal Experimental Design with R}}}", journal = j-J-STAT-SOFT, volume = "43", number = "BR-5", pages = "??--??", month = oct, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v043.b05", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Feb 25 18:33:22 MST 2012", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v43/b05", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2011-10-17; Accepted 2011-10-17", } @Article{Liu:2011:CSF, author = "Ziyue Liu and Wensheng Guo", title = "Code Snippet: \pkg{fmixed}: a {SAS} Macro for Smoothing-Spline-Based Functional Mixed Effects Models", journal = j-J-STAT-SOFT, volume = "43", number = "CS-1", pages = "??--??", month = jul, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v043.c01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Feb 25 18:33:22 MST 2012", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v43/c01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-09-13; Accepted 2011-05-27", } @Article{Williams:2011:CSB, author = "Michael S. Williams and Eric D. Ebel and Jennifer A. Hoeting", title = "Code Snippet: {Bayesian} Analysis for Food-Safety Risk Assessment: Evaluation of Dose-Response Functions within {WinBUGS}", journal = j-J-STAT-SOFT, volume = "43", number = "CS-2", pages = "??--??", month = jul, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v043.c02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Feb 25 18:33:22 MST 2012", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib", URL = "http://www.jstatsoft.org/v43/c02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-04-08; Accepted 2011-07-13", } @Article{Sevcikova:2011:BRP, author = "Hana Sevc{\'\i}kov{\'a} and Leontine Alkema and Adrian Raftery", title = "\pkg{bayesTFR}: An {R} package for Probabilistic Projections of the Total Fertility Rate", journal = j-J-STAT-SOFT, volume = "43", number = "1", pages = "??--??", month = jul, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v043.i01", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Feb 25 18:33:22 MST 2012", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v43/i01", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-10-03; Accepted 2011-07-06", xxtitle = "{bayesTFR} : An R Package for Probabilistic Projections of the Total Fertility Rate", } @Article{Monteiro:2011:BRP, author = "Jo{\~a}o Vitor Dias Monteiro and Sudipto Banerjee and Gurumurthy Ramachandran", title = "{B2Z}: {R} Package for {Bayesian} Two-Zone Models", journal = j-J-STAT-SOFT, volume = "43", number = "2", pages = "??--??", month = jul, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v043.i02", ISSN = "1548-7660", ISSN-L = "1548-7660", bibdate = "Sat Feb 25 18:33:22 MST 2012", bibsource = "http://www.math.utah.edu/pub/tex/bib/jstatsoft.bib; http://www.math.utah.edu/pub/tex/bib/s-plus.bib", URL = "http://www.jstatsoft.org/v43/i02", acknowledgement = ack-nhfb, fjournal = "Journal of Statistical Software", journal-URL = "http://www.jstatsoft.org/", pubdates = "Submitted 2010-06-09; Accepted 2011-05-12", xxtitle = "B2Z : An R Package for Bayesian Two-Zone Models", } @Article{Eckley:2011:LIL, author = "Idris A. Eckley and Guy P. Nason", title = "{LS2W}: Implementing the Locally Stationary {$2$D} Wavelet Process Approach in {R}", journal = j-J-STAT-SOFT, volume = "43", number = "3", pages = "??--??", month = jul, year = "2011", CODEN = "JSSOBK", DOI = "http://dx.doi.org/10.18637/jss.v043.i03"