@article{yee:wild:1996,
    Author = {Yee, T. W. and Wild, C. J.},
    Title = {Vector Generalized Additive Models},
    Year = 1996,
   JOURNAL = {Journal of the Royal Statistical Society~B},
    Volume = 58,
    Pages = {481--493},
    Keywords = {Nonparametric regression; Smoothing},
    Number = 3,
}

@article{gree:1984,
    Author = {Green, P. J.},
    Title = {Iteratively Reweighted Least Squares for Maximum Likelihood
            Estimation, and Some Robust and Resistant Alternatives},
    Year = 1984,
   JOURNAL = {Journal of the Royal Statistical Society~B},
    Volume = 46,
    Pages = {149--192},
    Keywords = {Scoring; Generalized linear model; Regression; Residual},
    Number = 2,
}

@book{hast:tibs:1990,
    Author = {Hastie, T. J. and Tibshirani, R. J.},
    Title = {Generalized Additive Models},
    Year = 1990,
    Publisher = {Chapman \& Hall},
    Address = {London},
    Pages = {335},
    Keywords = {Regression; Nonparametric; Generalized linear model}
}

@Manual{gam:pack:2009,
    title = {\pkg{gam}: Generalized Additive Models},
    author = {Trevor Hastie},
    year = {2008},
    note = {\proglang{R}~package version~1.01},
    url = {http://CRAN.R-project.org/package=gam}
}

@article{ande:1984,
    Author = {Anderson, J. A.},
    Title = {Regression and Ordered Categorical Variables},
    Year = 1984,
   JOURNAL = {Journal of the Royal Statistical Society~B},
    Volume = 46,
    Pages = {1--30},
    Keywords = {Assessed variable; Logistic regression; Stereotype
               regression; Maximum likelihood},
    Number = 1,
}

@article{firt:1993,
author = {Firth, D.},
title = {Bias Reduction of Maximum Likelihood Estimates},
journal = {Biometrika},
volume = {80},
pages = {27--38},
year = {1993},
number = {1},
abstract = {It is shown how, in regular parametric problems, the
first-order term is removed from the asymptotic bias of maximum likelihood
estimates by a suitable modification of the score function. In exponential
families with canonical parameterization the effect is to penalize the
likelihood by the Jeffreys invariant prior. In binomial logistic models,
Poisson log linear models and certain other generalized linear models,
the Jeffreys prior penalty function can be imposed in standard regression
software using a scheme of iterative adjustments to the data.},
}

@InProceedings{alli:2004,
    Author = {Allison, P.},
    Title = {Convergence Problems in Logistic Regression},
    chapter = {10},
    Year = 2004,
    Crossref = {altm:gill:mcdo:2004},
    Pages = {238--252},
 BookTITLE = {Numerical Issues in Statistical Computing for the Social
              Scientist},
 PUBLISHER = {Wiley-Interscience},
   ADDRESS = {Hoboken, NJ, USA},
}

@book {altm:gill:mcdo:2004,
    AUTHOR = {Altman, Micah and Gill, Jeff and McDonald, Michael P.},
     TITLE = {Numerical Issues in Statistical Computing for the Social
              Scientist},
 PUBLISHER = {Wiley-Interscience},
   ADDRESS = {Hoboken, NJ, USA},
      YEAR = {2004},
     PAGES = {xvi+323},
   MRCLASS = {62-02 (62-04 62P25 65-02 91-02)},
  MRNUMBER = {MR2020104},
}

@article{yee:2010v,
    Author = {Yee, T. W.},
    Title = {{VGLM}s and {VGAM}s:
             An Overview for Applications in Fisheries Research},
    Year = 2010,
    Journal = {Fisheries Research},
   FJournal = {Fisheries Research},
    Volume = {101},
    Pages = {116--126},
    Number = {1--2},
}

@article{imai:king:lau:2008,
    AUTHOR = {Imai, Kosuke and King, Gary and Lau, Olivia},
     TITLE = {Toward A Common Framework for Statistical Analysis and
              Development},
  JOURNAL = {Journal of Computational and Graphical Statistics},
  YEAR = 2008,
  VOLUME = 17,
  PAGES = {892--913},
  NUMBER = 4,
}

@book{stok:davi:koch:2000,
    Author = {Stokes, W. and Davis, J. and Koch, W.},
    Title = {Categorical Data Analysis Using The \proglang{SAS} System},
    Year = 2000,
    Edition = {2nd},
    Publisher = {SAS Institute Inc.},
    Address = {Cary, NC, USA},
    PAGES = {648},
}

@article{neld:wedd:1972,
    Author = {Nelder, J. A. and Wedderburn, R. W. M.},
    Title = {Generalized Linear Models},
    Year = 1972,
   JOURNAL = {Journal of the Royal Statistical Society~A},
    Volume = 135,
    Pages = {370--384},
    Keywords = {Probit analysis; Analysis of variance; Contingency table;
               Exponential family; Quantal response; Weighted least
               squares},
    Number = 3,
}

@book{agre:2002,
    Author = {Agresti, Alan},
    Title = {Categorical Data Analysis},
    Year = 2002,
    Publisher = {John Wiley \& Sons},
    Address = {New York, USA},
    Edition = {2nd},
}

@book{fahr:tutz:2001,
    Author = {Fahrmeir, L. and Tutz, G.},
    Title = {Multivariate Statistical Modelling Based on Generalized Linear
            Models},
    Year = 2001,
    Edition = {2nd},
    Publisher = {Springer-Verlag},
    ADDRESS = {New York, USA},
}

@book{leon:2000,
    Author = {Leonard, Thomas},
    Title = {A Course in Categorical Data Analysis},
    Year = 2000,
    Publisher = {Chapman \& Hall/CRC},
    Address = {Boca Raton, FL, USA},
}

@book{lloy:1999,
    Author = {Lloyd, C. J.},
    Title = {Statistical Analysis of Categorical Data},
    Year = 1999,
    Publisher = {John Wiley \& Sons},
    Address = {New York, USA}
}

@book{long:1997,
    Author = {Long, J. S.},
    Title = {Regression Models for Categorical and Limited Dependent Variables},
    Year = 1997,
    Publisher = {Sage Publications},
    ADDRESS = {Thousand Oaks, CA, USA},
}

@book{mccu:neld:1989,
    Author = {McCullagh, P. and Nelder, J. A.},
    Title = {Generalized Linear Models},
    Year = 1989,
    Edition = {2nd},
    Publisher = {Chapman \& Hall},
    Address = {London},
    Pages = {500}
}

@book{simo:2003,
    Author = {Simonoff, J. S.},
    Title = {Analyzing Categorical Data},
    Year = 2003,
    Pages = {496},
    Publisher = {Springer-Verlag},
    Address = {New York, USA}
}

@article{liu:agre:2005,
    Author = {Liu, I. and Agresti, A.},
    Title = {The Analysis of Ordered Categorical Data:
             An Overview and a Survey of Recent Developments},
    Year = 2005,
    Journal = {Sociedad Estad{\'i}stica e Investigaci{\'o}n Operativa Test},
    Volume = 14,
    Pages = {1--73},
    Number = 1,
}

@MANUAL{thom:2009,
    TITLE = {\proglang{R} (and \proglang{S-PLUS}) Manual to Accompany
             Agresti's \textit{Categorical Data Analysis}~(2002),
             2nd edition},
    AUTHOR = {Thompson, L. A.},
    YEAR = {2009},
    URL = {https://home.comcast.net/~lthompson221/Splusdiscrete2.pdf},
}

@article{yee:2008c,
    Author = {Yee, T. W.},
    Title = {The \pkg{VGAM} Package},
    Year = 2008,
    Journal = {\proglang{R} {N}ews},
    Volume = 8,
    Pages = {28--39},
    Number = 2,
}

@article{Rnews:Yee:2008,
  author = {Thomas W. Yee},
  title = {The \pkg{VGAM} Package},
  journal = {\proglang{R}~News},
  year = 2008,
  volume = 8,
  pages = {28--39},
  month = {October},
  url = {http://CRAN.R-project.org/doc/Rnews/},
  number = 2,
}

@article{yee:hast:2003,
    AUTHOR = {Yee, T. W. and Hastie, T. J.},
     TITLE = {Reduced-rank Vector Generalized Linear Models},
   JOURNAL = {Statistical Modelling},
    Volume = 3,
     Pages = {15--41},
      YEAR = {2003},
     Number = 1,
}

article{yee:wild:1996,
    Author = {Yee, T. W. and Wild, C. J.},
    Title = {Vector Generalized Additive Models},
    Year = 1996,
   JOURNAL = {Journal of the Royal Statistical Society~B},
    Volume = 58,
    Pages = {481--493},
    Keywords = {Nonparametric regression; Smoothing},
    Number = 3,
}

@article{good:1981,
    Author = {Goodman, L. A.},
    Title = {Association Models and Canonical Correlation in the Analysis
             of Cross-classifications Having Ordered Categories},
    Year = 1981,
    Journal = {Journal of the American Statistical Association},
    Volume = 76,
    Pages = {320--334},
    Number = 374,
}

@article{buja:hast:tibs:1989,
    Author = {Buja, Andreas and Hastie, Trevor and Tibshirani, Robert},
    Title = {Linear Smoothers and Additive Models},
    Year = 1989,
   JOURNAL = {The Annals of Statistics},
    Volume = 17,
    Pages = {453--510},
    Keywords = {Nonparametric; Regression; Kernel estimator},
    Number = 2,
}

@article{yee:step:2007,
    AUTHOR = {Yee, Thomas W. and Stephenson, Alec G.},
     TITLE = {Vector Generalized Linear and Additive Extreme Value Models},
   JOURNAL = {Extremes},
  FJOURNAL = {Extremes. Statistical Theory and Applications in Science,
              Engineering and Economics},
    VOLUME = {10},
      YEAR = {2007},
     PAGES = {1--19},
   MRCLASS = {Database Expansion Item},
  MRNUMBER = {MR2407639},
    NUMBER = {1--2},
}

@article{wand:orme:2008,
    Author = {Wand, M. P. and Ormerod, J. T.},
    Title = {On Semiparametric Regression with {O}'{S}ullivan Penalized Splines},
    Year = 2008,
    Journal = {The Australian and New Zealand Journal of Statistics},
    Volume = 50,
    Issue = 2,
    Pages = {179--198},
    Number = 2,
}

@book{cham:hast:1993,
    Editor = {Chambers, John M. and Hastie, Trevor J.},
    Title = {Statistical Models in \proglang{S}},
    Publisher = {Chapman \& Hall},
    Year = 1993,
    Pages = {608},
    Address = {New York, USA},
    Keywords = {Computing},
}

@Article{pete:harr:1990,
    Author = {Peterson, B. and Harrell, Frank E.},
    Title = {Partial Proportional Odds Models for Ordinal Response Variables},
    Year = 1990,
    Journal = {Applied Statistics},
    Volume = 39,
    Pages = {205--217},
    Number = 2,
}

@article{pete:1990,
    Author = {Peterson, B.},
    Title = {Letter to the Editor: Ordinal Regression Models for
             Epidemiologic Data},
    Year = 1990,
    Journal = {American Journal of Epidemiology},
    Volume = 131,
    Pages = {745--746}
}

@article{hast:tibs:buja:1994,
    AUTHOR = {Hastie, Trevor and Tibshirani, Robert and Buja, Andreas},
     TITLE = {Flexible Discriminant Analysis by Optimal Scoring},
   JOURNAL = {Journal of the American Statistical Association},
    VOLUME = {89},
      YEAR = {1994},
     PAGES = {1255--1270},
     CODEN = {JSTNAL},
   MRCLASS = {62H30},
  MRNUMBER = {95h:62099},
    NUMBER = {428},
}

@article{firth:2005,
    Author = {Firth, David},
    Title = {{B}radley-{T}erry Models in \proglang{R}},
    Year = 2005,
    Journal = {Journal of Statistical Software},
    Volume = 12,
    Number = 1,
    Pages = {1--12},
    URL = "http://www.jstatsoft.org/v12/i01/",
}

@book{weir:1996,
    Author = {Weir, Bruce S.},
    Title = {Genetic Data Analysis II: Methods for Discrete Population
             Genetic Data},
    Year = 1996,
    Publisher = {Sinauer Associates, Inc.},
    Address = {Sunderland, MA, USA}
}

@book{lang:2002,
    Author = {Lange, Kenneth},
    Title = {Mathematical and Statistical Methods for Genetic Analysis},
    Year = 2002,
    Edition = {2nd},
    Publisher = {Springer-Verlag},
    Address = {New York, USA},
}

@article{macm:etal:1995,
    Author = {MacMahon, S. and Norton, R. and Jackson, R. and Mackie, M. J. and
              Cheng, A. and
              Vander Hoorn, S. and Milne, A. and McCulloch, A.},
    Title = {Fletcher {C}hallenge-{U}niversity of {A}uckland {H}eart \&
             {H}ealth {S}tudy: Design and Baseline Findings},
    Year = 1995,
    Journal = {New Zealand Medical Journal},
    Volume = 108,
    Pages = {499--502},
}

@article{altm:jack:2010,
  author =      {Altman, M. and Jackman, S.},
  title =       "Nineteen Ways of Looking at Statistical Software",
  journal =     "Journal of Statistical Software",
  year =        "2010",
  note =        "Forthcoming"
}

@article{fox:hong:2009,
  author =    "John Fox and Jangman Hong",
  title =    {Effect Displays in \proglang{R} for Multinomial and
                 Proportional-Odds Logit Models:
                 Extensions to the \pkg{effects} Package},
  journal =    "Journal of Statistical Software",
  volume =    "32",
  number =    "1",
  pages =    "1--24",
  year =     "2009",
  URL =      "http://www.jstatsoft.org/v32/i01/",
}

@article{wild:yee:1996,
    Author = {Wild, C. J. and Yee, T. W.},
    Title = {Additive Extensions to Generalized Estimating Equation
            Methods},
    Year = 1996,
   JOURNAL = {Journal of the Royal Statistical Society~B},
    Volume = 58,
    Pages = {711--725},
    Keywords = {Longitudinal data; Nonparametric; Regression; Smoothing},
    NUMBER = {4},
}

@Article{Yee:2010,
   author        = {Thomas W. Yee},
   title         = {The \pkg{VGAM} Package for Categorical Data Analysis},
   journal       = {Journal of Statistical Software},
   year          = {2010},
   volume        = {32},
   number        = {10},
   pages	 = {1--34},
   url           = {http://www.jstatsoft.org/v32/i10/}
}

@Manual{R,
   title         = {\proglang{R}: {A} Language and Environment
                    for Statistical Computing},
   author        = {{\proglang{R} Development Core Team}},
   organization  = {\proglang{R} Foundation for Statistical Computing},
   address       = {Vienna, Austria},
   year          = {2009},
   note          = {{ISBN} 3-900051-07-0},
   url           = {http://www.R-project.org/}
}

@Book{Venables+Ripley:2002,
   author        = {William N. Venables and Brian D. Ripley},
   title         = {Modern Applied Statistics with \proglang{S}},
   edition       = {4th},
   year          = {2002},
   pages         = {495},
   publisher     = {Springer-Verlag},
   address       = {New York},
    url = {http://www.stats.ox.ac.uk/pub/MASS4/},
}

@Manual{SAS,
   author        = {{\proglang{SAS} Institute Inc.}},
   title         = {The \proglang{SAS} System, Version 9.1},
   year          = {2003},
   address       = {Cary, NC},
   url           = {http://www.sas.com/}
}

@Manual{yee:VGAM:2010,
   title        = {\pkg{VGAM}: Vector Generalized Linear and Additive Models},
   author       = {Yee, T. W.},
   year         = {2010},
   note         = {\proglang{R}~package version~0.7-10},
   url          = {http://CRAN.R-project.org/package=VGAM}
}

@Manual{Harrell:2009,
   title        = {\pkg{rms}: Regression Modeling Strategies},
   author       = {Frank E. {Harrell, Jr.}},
   year         = {2009},
   note         = {\proglang{R}~package version~2.1-0},
   url          = {http://CRAN.R-project.org/package=rms}
}

@Manual{Meyer+Zeileis+Hornik:2009,
   title        = {\pkg{vcd}: Visualizing Categorical Data},
   author       = {David Meyer and Achim Zeileis and Kurt Hornik},
   year         = {2009},
   note         = {\proglang{R}~package version~1.2-7},
   url          = {http://CRAN.R-project.org/package=vcd}
}

@Article{Meyer+Zeileis+Hornik:2006,
   author       = {David Meyer and Achim Zeileis and Kurt Hornik},
   title        = {The Strucplot Framework: Visualizing Multi-Way
                   Contingency Tables with \pkg{vcd}},
   journal      = {Journal of Statistical Software},
   year         = {2006},
   volume       = {17},
   number       = {3},
   pages        = {1--48},
   url          = {http://www.jstatsoft.org/v17/i03/}
}

@Manual{Turner+Firth:2009,
   title        = {Generalized Nonlinear Models in \proglang{R}:
                   An Overview of the \pkg{gnm} Package},
   author       = {Heather Turner and David Firth},
   year         = {2009},
   note         = {\proglang{R}~package version~0.10-0},
   url          = {http://CRAN.R-project.org/package=gnm},
}

@Article{Rnews:Turner+Firth:2007,
  author       = {Heather Turner and David Firth},
  title        = {\pkg{gnm}: A Package for Generalized Nonlinear Models},
  journal      = {\proglang{R}~News},
  year         = 2007,
  volume       = 7,
  number       = 2,
  pages        = {8--12},
  month        = {October},
  url = {http://CRAN.R-project.org/doc/Rnews/},
}


@Manual{ElemStatLearn:2009,
    title = {\pkg{ElemStatLearn}: Data Sets, Functions and
             Examples from the Book `The Elements
             of Statistical Learning, Data Mining, Inference, and
             Prediction' by Trevor Hastie, Robert Tibshirani and Jerome
             Friedman},
    author = {Kjetil Halvorsen},
    year = {2009},
    note = {\proglang{R}~package version~0.1-7},
    url = {http://CRAN.R-project.org/package=ElemStatLearn},
  }

@Manual{Zelig:2009,
    title = {\pkg{Zelig}: Everyone's Statistical Software},
    author = {Kosuke Imai and Gary King and Olivia Lau},
    year = {2009},
    note = {\proglang{R}~package version~3.4-5},
    url = {http://CRAN.R-project.org/package=Zelig},
}

@article{kosm:firt:2009,
    author = {Kosmidis, I. and Firth, D.},
     title = {Bias Reduction in Exponential Family Nonlinear Models},
      year = {2009},
   JOURNAL = {Biometrika},
  FJOURNAL = {Biometrika},
    volume = {96},
     PAGES = {793--804},
    NUMBER = {4},
}

@techreport{kosm:firt:2008,
    author = {Kosmidis, I. and Firth, D.},
    title = {Bias Reduction in Exponential Family Nonlinear Models},
    Journal = {CRiSM Paper No.~08-05v2},
    year = {2008},
    URL =  "http://www.warwick.ac.uk/go/crism",
    Institution = {Department of Statistics, Warwick University},
}

@Manual{Kosmidis:2008,
   title        = {\pkg{brglm}: Bias Reduction in Binary-Response {GLMs}},
   author       = {Ioannis Kosmidis},
   year         = {2008},
   note         = {\proglang{R}~package version~0.5-4},
   url          = {http://CRAN.R-project.org/package=brglm},
}

@Manual{Hatzinger:2009,
    title = {\pkg{prefmod}: Utilities to Fit Paired Comparison
             Models for Preferences},
    author = {Reinhold Hatzinger},
    year = {2009},
    note = {\proglang{R}~package version~0.8-16},
    url = {http://CRAN.R-project.org/package=prefmod},
}

@Manual{firth:2008,
    title = {\pkg{BradleyTerry}: Bradley-Terry Models},
    author = {David Firth},
    year = {2008},
    note = {\proglang{R}~package version~0.8-7},
    url = {http://CRAN.R-project.org/package=BradleyTerry},
  }

@Manual{gnlm:2007,
    title = {\pkg{gnlm}: Generalized Nonlinear Regression Models},
    author = {Jim Lindsey},
    year = {2007},
    note = {\proglang{R}~package version~1.0},
    url = {http://popgen.unimaas.nl/~jlindsey/rcode.html},
}

@Manual{Konis:2009,
    title = {\pkg{safeBinaryRegression}: Safe Binary Regression},
    author = {Kjell Konis},
    year = {2009},
    note = {\proglang{R}~package version~0.1-2},
    url = {http://CRAN.R-project.org/package=safeBinaryRegression},
}

