Table of contents for issues of R News: the Newsletter of the R Project

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Volume 1, Number 1, January, 2001
Volume 1, Number 2, June, 2001
Volume 1, Number 3, September, 2001
Volume 2, Number 1, March, 2002
Volume 2, Number 2, June, 2002
Volume 2, Number 3, December, 2002
Volume 3, Number 1, June, 2003
Volume 3, Number 2, October, 2003
Volume 3, Number 3, December, 2003
Volume 4, Number 1, June, 2004
Volume 4, Number 2, September, 2004
Volume 5, Number 1, May, 2005
Volume 5, Number 2, November, 2005
Volume 6, Number 1, March, 2006
Volume 6, Number 2, May, 2006
Volume 6, Number 3, August, 2006
Volume 3, Number 3, August, 2006
Volume 6, Number 3, August, 2006
Volume 6, Number 4, October, 2006
Volume 6, Number 5, December, 2006
Volume 7, Number 1, April, 2007
Volume 7, Number 2, October, 2007
Volume 7, Number 3, December, 2007
Volume 8, Number 1, May, 2008
Volume 8, Number 2, October, 2008
Volume 1, Number 1, June, 2009
Volume 1, Number 2, December, 2009
Volume 2, Number 1, June, 2010
Volume 2, Number 2, December, 2010
Volume 3, Number 1, June, 2011
Volume 3, Number 2, December, 2011
Volume 4, Number 1, June, 2012
Volume 4, Number 2, December, 2012
Volume 5, Number 1, June, 2013
Volume 5, Number 2, December, 2013
Volume 6, Number 1, June, 2014
Volume 6, Number 2, December, 2014
Volume 7, Number 1, June, 2015
Volume 7, Number 2, December, 2015
Volume 8, Number 1, August, 2016
Volume 8, Number 2, December, 2016
Volume 9, Number 1, June, 2017
Volume 9, Number 2, December, 2017
Volume 10, Number 1, July, 2018
Volume 10, Number 2, December, 2018
Volume 11, Number 1, June, 2019
Volume 11, Number 2, December, 2019
Volume 12, Number 1, June, 2020
Volume 12, Number 2, December, 2020


R News: the Newsletter of the R Project
Volume 1, Number 1, January, 2001

                   Luke Tierney   Under New Memory Management  . . . . . . 10--11
                Torsten Hothorn   On Exact Rank Tests in R . . . . . . . . 11--12
               Stefano M. Iacus   Porting R to the Macintosh . . . . . . . 13
                 Peter Dalgaard   The density of the non-central
                                  chi-squared distribution for large
                                  values of the noncentrality parameter    14--15
                Brian D. Ripley   Connections  . . . . . . . . . . . . . . 16--17
                Brian D. Ripley   Using Databases with R . . . . . . . . . 18--20
                      M. J. Ray   Rcgi 4: Making Web Statistics Even
                                  Easier . . . . . . . . . . . . . . . . . 20--21
           John M. Chambers and   
             Duncan Temple Lang   Omegahat Packages for R  . . . . . . . . 21--24
             Duncan Temple Lang   Using XML for Statistics: The \pkgXML
                                  Package  . . . . . . . . . . . . . . . . 24--27
                  Bill Venables   Programmer's Niche . . . . . . . . . . . 27--30

R News: the Newsletter of the R Project
Volume 1, Number 2, June, 2001

            Brian D. Ripley and   
                    Kurt Hornik   Date--Time Classes . . . . . . . . . . . 8--11
                Brian D. Ripley   Installing R under Windows . . . . . . . 11--14
      Paulo J. Ribeiro, Jr. and   
                Peter J. Diggle   \pkggeoR: A Package for Geostatistical
                                  Analysis . . . . . . . . . . . . . . . . 14--18
               Martin Schlather   Simulation and Analysis of Random Fields 18--20
                  Simon N. Wood   \pkgmgcv: GAMs and Generalized Ridge
                                  Regression for R . . . . . . . . . . . . 20--25
               Jonathan Rougier   What's the Point of `tensor'?  . . . . . 26--27
            Torsten Hothorn and   
                Frank Bretz and   
                      Alan Genz   On Multivariate $t$ and Gauß
                                  Probabilities in R . . . . . . . . . . . 27--29

R News: the Newsletter of the R Project
Volume 1, Number 3, September, 2001

                   Jan de Leeuw   Porting R to Darwin/X11 and Mac OS X . . 2--4
              Michael Na Li and   
                  A. J. Rossini   \pkgRPVM: Cluster Statistical Computing
                                  in R . . . . . . . . . . . . . . . . . . 4--7
                  Achim Zeileis   \pkgstrucchange: Testing for Structural
                                  Change in Linear Regression
                                  Relationships  . . . . . . . . . . . . . 8--11
                  Thomas Lumley   Programmer's Niche: Macros in R  . . . . 11--13
                   Roger Bivand   More on Spatial Data . . . . . . . . . . 13--17
           John M. Chambers and   
             Duncan Temple Lang   Object-Oriented Programming in R . . . . 17--19
             Duncan Temple Lang   In Search of C/C++ & FORTRAN Routines . . 20--23
                    David Meyer   Support Vector Machines  . . . . . . . . 23--26
                 Peter Dalgaard   A Primer on the R-Tcl/Tk Package . . . . 27--31
            Claudio Agostinelli   \pkgwle: A Package for Robust Statistics
                                  using Weighted Likelihood  . . . . . . . 32--38


R News: the Newsletter of the R Project
Volume 2, Number 1, March, 2002

                 Duncan Murdoch   Reading Foreign Files  . . . . . . . . . 2--3
            Torsten Hothorn and   
                Berthold Lausen   Maximally Selected Rank Statistics in R  3--5
          Günther Sawitzki   Quality Control and Early Diagnostics
                                  for cDNA Microarrays . . . . . . . . . . 6--10
           Robert Gentleman and   
                  Vincent Carey   Bioconductor . . . . . . . . . . . . . . 11--16
              Jonathan Marchini   \pkgAnalyzeFMRI: An R package for the
                                  exploration and analysis of MRI and fMRI
                                  datasets . . . . . . . . . . . . . . . . 17--23
            Sandrine Dudoit and   
               Yee Hwa Yang and   
                    Ben Bolstad   Using R for the Analysis of DNA
                                  Microarray Data  . . . . . . . . . . . . 24--32

R News: the Newsletter of the R Project
Volume 2, Number 2, June, 2002

                Brian D. Ripley   Time Series in R 1.5.0 . . . . . . . . . 2--7
                    David Meyer   Naive Time Series Forecasting Methods    7--10
                         Hao Yu   \pkgRmpi: Parallel Statistical Computing
                                  in R . . . . . . . . . . . . . . . . . . 10--14
                   Paul Murrell   The \pkggrid Graphics Package  . . . . . 14--19
                Deepayan Sarkar   Lattice  . . . . . . . . . . . . . . . . 19--23
                  Bill Venables   Programmer's Niche . . . . . . . . . . . 24--26
         Ole F. Christensen and   
               Paulo J. Ribeiro   \pkggeoRglm: A Package for Generalised
                                  Linear Spatial Models  . . . . . . . . . 26--28
           Robert Gentleman and   
                    Jeff Gentry   Querying PubMed  . . . . . . . . . . . . 28--31
                Alec Stephenson   \pkgevd: Extreme Value Distributions . . 31--32
              Andrea Peters and   
            Torsten Hothorn and   
                Berthold Lausen   \pkgipred: Improved Predictors . . . . . 33--36

R News: the Newsletter of the R Project
Volume 2, Number 3, December, 2002

                Angelo J. Canty   Resampling Methods in R: The \pkgboot
                                  Package  . . . . . . . . . . . . . . . . 2--7
              Achim Zeileis and   
                Torsten Hothorn   Diagnostic Checking in Regression
                                  Relationships  . . . . . . . . . . . . . 7--10
                 David E. Brahm   Delayed Data Packages  . . . . . . . . . 11--12
                        Jun Yan   \pkggeepack: Yet Another Package for
                                  Generalized Estimating Equations . . . . 12--14
                Frank Bretz and   
            Torsten Hothorn and   
                 Peter Westfall   On Multiple Comparisons in R . . . . . . 14--17
                  Andy Liaw and   
                 Matthew Wiener   Classification and Regression by
                                  \pkgrandomForest . . . . . . . . . . . . 18--22
               Robert Gentleman   Some Strategies for Dealing with Genomic
                                  Data . . . . . . . . . . . . . . . . . . 22--25
                 Peter Dalgaard   Changes to the R-Tcl/Tk package  . . . . 25--27
               Friedrich Leisch   Sweave, Part I: Mixing R and \LaTeX  . . 28--31
                     Uwe Ligges   R Help Desk: Automation of Mathematical
                                  Annotation in Plots  . . . . . . . . . . 32--34


R News: the Newsletter of the R Project
Volume 3, Number 1, June, 2003

                   Luke Tierney   Name Space Management for R  . . . . . . 2--6
                  Douglas Bates   Converting Packages to S4  . . . . . . . 6--8
              Gregory R. Warnes   The \pkggenetics Package . . . . . . . . 9--13
         Jürgen Groß   Variance Inflation Factors . . . . . . . 13--15
                    Jun Yan and   
                  A. J. Rossini   Building Microsoft Windows Versions of R
                                  and R packages under Intel Linux . . . . 15--17
                  Thomas Lumley   Analysing Survey Data in R . . . . . . . 17--20
               Brett Carson and   
             Robert Murison and   
                   Ian A. Mason   Computational Gains Using RPVM on a
                                  Beowulf Cluster  . . . . . . . . . . . . 21--26
                     Uwe Ligges   R Help Desk: Getting Help --- R's Help
                                  Facilities and Manuals . . . . . . . . . 26--28

R News: the Newsletter of the R Project
Volume 3, Number 2, October, 2003

                  Marc Schwartz   R Help Desk: An Introduction to Using
                                  R's Base Graphics  . . . . . . . . . . . 2--6
                   Paul Murrell   Integrating grid Graphics Output with
                                  Base Graphics Output . . . . . . . . . . 7--12
                   Angelo Mineo   A New Package for the General Error
                                  Distribution . . . . . . . . . . . . . . 13--16
                 Colin A. Smith   Web-based Microarray Analysis using
                                  Bioconductor . . . . . . . . . . . . . . 17--20
               Friedrich Leisch   \pkgSweave, Part II: Package Vignettes   21--24

R News: the Newsletter of the R Project
Volume 3, Number 3, December, 2003

           Jonathan Edwards and   
                      Paul Oman   Dimensional Reduction for Data Mapping   2--7
                Thomas Petzoldt   R as a Simulation Platform in Ecological
                                  Modelling  . . . . . . . . . . . . . . . 8--16
             J. R. Lockwood and   
               Harold Doran and   
            Daniel F. McCaffrey   Using R for Estimating Longitudinal
                                  Student Achievement Models . . . . . . . 17--23
                       Rod Ball   lmeSplines . . . . . . . . . . . . . . . 24--28
                Mark Bravington   Debugging Without (Too Many) Tears . . . 29--32
                  Eric Lecoutre   The \pkgR2HTML Package . . . . . . . . . 33--36
                     Uwe Ligges   R Help Desk: Package Management  . . . . 37--39


R News: the Newsletter of the R Project
Volume 4, Number 1, June, 2004

                  Marc Schwartz   The Decision To Use R  . . . . . . . . . 2--5
             Daniel Chessel and   
             Anne B. Dufour and   
                Jean Thioulouse   The \pkgade4 Package --- I: One-table
                                  Methods  . . . . . . . . . . . . . . . . 5--10
                   Luca Scrucca   \pkgqcc: An R package for quality
                                  control charting and statistical process
                                  control  . . . . . . . . . . . . . . . . 11--17
                  Douglas Bates   Least Squares Calculations in R  . . . . 17--20
              Jianhua Zhang and   
               Robert Gentleman   Tools for Interactively Exploring R
                                  Packages . . . . . . . . . . . . . . . . 20--25
                  Thomas Lumley   The \pkgsurvival Package . . . . . . . . 26--28
         Gabor Grothendieck and   
                Thomas Petzoldt   R Help Desk: Date and Time Classes in R  29--32
                  Thomas Lumley   Programmers' Niche: A Simple Class, in
                                  S3 and S4  . . . . . . . . . . . . . . . 33--36

R News: the Newsletter of the R Project
Volume 4, Number 2, September, 2004

                Brian D. Ripley   Lazy Loading and Packages in R 2.0.0 . . 2--4
                   Paul Murrell   Fonts, Lines, and Transparency in R
                                  Graphics . . . . . . . . . . . . . . . . 5--9
              Roger D. Peng and   
                  Leah J. Welty   The NMMAPSdata Package . . . . . . . . . 10--14
                Jeff Gentry and   
              Vincent Carey and   
              Emden Gansner and   
               Robert Gentleman   Laying Out Pathways With \pkgRgraphviz   14--18
                        Jun Yan   Fusing R and BUGS through Wine . . . . . 19--21
                   Paul Gilbert   R Package Maintenance  . . . . . . . . . 21--24


R News: the Newsletter of the R Project
Volume 5, Number 1, May, 2005

                Brian D. Ripley   Internationalization Features of R 2.1.0 2--7
                Brian D. Ripley   Packages and their Management in R 2.1.0 8--11
                   Paul Murrell   Recent Changes in grid Graphics  . . . . 12--20
            Alessandra Brazzale   \pkghoa: An R Package Bundle for Higher
                                  Order Likelihood Inference . . . . . . . 20--27
                  Douglas Bates   Fitting Linear Mixed Models in R . . . . 27--30
              Ray Brownrigg and   
                    David Harte   Using R for Statistical Seismology . . . 31--35
               Jonathan Rougier   Literate Programming for Creating and
                                  Maintaining Packages . . . . . . . . . . 35--39
                  Achim Zeileis   CRAN Task Views  . . . . . . . . . . . . 39--40
              Damian Betebenner   Using Control Structures with Sweave . . 40--44
              Bill Pikounis and   
                      Andy Liaw   The Value of R for Preclinical
                                  Statisticians  . . . . . . . . . . . . . 44--47
             Robin K. S. Hankin   Recreational mathematics with R:
                                  introducing the ``\pkgmagic'' package    48--51
                       John Fox   Programmer's Niche: How Do You Spell
                                  That Number? . . . . . . . . . . . . . . 51--55

R News: the Newsletter of the R Project
Volume 5, Number 2, November, 2005

          Adrian E. Raftery and   
             Ian S. Painter and   
        Christopher T. Volinsky   \pkgBMA: An R package for Bayesian Model
                                  Averaging  . . . . . . . . . . . . . . . 2--8
           Edzer J. Pebesma and   
                Roger S. Bivand   Classes and methods for spatial data in
                                  R  . . . . . . . . . . . . . . . . . . . 9--13
                   Xianhong Xie   Running long R jobs with Condor DAG  . . 13--15
            Pierre L'Ecuyer and   
                  Josef Leydold   \pkgrstream: Streams of random numbers
                                  for stochastic simulation  . . . . . . . 16--20
                    Axel Benner   \pkgmfp: Multivariable fractional
                                  polynomials  . . . . . . . . . . . . . . 20--23
                  Oliver Sailer   \pkgcrossdes: A package for design and
                                  randomization in crossover studies . . . 24--27
                 Uwe Ligges and   
                 Duncan Murdoch   R Help Desk: Make `R CMD' Work under
                                  Windows --- an Example . . . . . . . . . 27--28


R News: the Newsletter of the R Project
Volume 6, Number 1, March, 2006

           Andrew D. Martin and   
                 Kevin M. Quinn   Applied Bayesian Inference in R using
                                  \pkgMCMCpack . . . . . . . . . . . . . . 2--7
             Martyn Plummer and   
                 Nicky Best and   
                Kate Cowles and   
                    Karen Vines   \pkgCODA: Convergence Diagnosis and
                                  Output Analysis for MCMC . . . . . . . . 7--11
              Samantha Cook and   
                  Andrew Gelman   Bayesian Software Validation . . . . . . 11--12
              Andrew Thomas and   
                 Bob O'Hara and   
                 Uwe Ligges and   
                 Sibylle Sturtz   Making BUGS Open . . . . . . . . . . . . 12--17
                  Andrew Thomas   The BUGS Language  . . . . . . . . . . . 17--21
               Jouni Kerman and   
                  Andrew Gelman   Bayesian Data Analysis using R . . . . . 21--24

R News: the Newsletter of the R Project
Volume 6, Number 2, May, 2006

          Peter Ruckdeschel and   
              Matthias Kohl and   
              Thomas Stabla and   
             Florian Camphausen   S4 Classes for Distributions . . . . . . 2--6
             David Clifford and   
                Peter McCullagh   The regress function . . . . . . . . . . 6--10
                 \Lukasz Komsta   Processing data for outliers . . . . . . 10--13
                 David Kane and   
                      Jeff Enos   Analysing equity portfolios in R . . . . 13--21
                 Roman Pahl and   
            Andreas Ziegler and   
             Inke R. König   \pkgGroupSeq: Designing clinical trials
                                  using group sequential designs . . . . . 21--26
               Sven Garbade and   
                  Peter Burgard   Using R/Sweave in everyday clinical
                                  practice . . . . . . . . . . . . . . . . 26--31
                 M. Wangler and   
              J. Beyersmann and   
                  M. Schumacher   \pkgchangeLOS: An R-package for change
                                  in length of hospital stay based on the
                                  Aalen--Johansen estimator  . . . . . . . 31--35
                 Nitin Jain and   
              Gregory R. Warnes   Balloon Plot . . . . . . . . . . . . . . 35--38
                  Jing Hua Zhao   Drawing pedigree diagrams with R and
                                  graphviz . . . . . . . . . . . . . . . . 38--41
               Paul Murrell and   
                   Brian Ripley   Non-Standard Fonts in PostScript and PDF
                                  graphics . . . . . . . . . . . . . . . . 41--47
  Sòren Hòjsgaard   The \pkgdoBy package . . . . . . . . . . 47--49
             Robin K. S. Hankin   Normed division algebras with R:
                                  Introducing the \pkgonion package  . . . 49--52
             Robin K. S. Hankin   Electrical properties of resistor
                                  networks . . . . . . . . . . . . . . . . 52--53

R News: the Newsletter of the R Project
Volume 6, Number 3, August, 2006

              Peter Watkins and   
                  Bill Venables   Non-linear regression for optimising the
                                  separation of carboxylic acids . . . . . 2--7


R News: the Newsletter of the R Project
Volume 3, Number 3, August, 2006

                 Johannes Ranke   Fitting dose-response curves from
                                  bioassays and toxicity testing . . . . . 7--12


R News: the Newsletter of the R Project
Volume 6, Number 3, August, 2006

       Bjòrn-Helge Mevik   The \pkgpls package  . . . . . . . . . . 12--17
               Chris Fraley and   
              Adrian E. Raftery   Some Applications of Model-Based
                                  Clustering in Chemistry  . . . . . . . . 17--23
                Ron Wehrens and   
               Egon Willighagen   Mapping databases of X-ray powder
                                  patterns . . . . . . . . . . . . . . . . 24--28
                  Rajarshi Guha   Generating, Using and Visualizing
                                  Molecular Information in R . . . . . . . 28--33

R News: the Newsletter of the R Project
Volume 6, Number 4, October, 2006

                       Max Kuhn   Sweave and the Open Document Format ---
                                  The \pkgodfWeave Package . . . . . . . . 2--8
                      Jim Lemon   plotrix  . . . . . . . . . . . . . . . . 8--12
              Adrian Bowman and   
              Ewan Crawford and   
                 Richard Bowman   \pkgrpanel: making graphs move with
                                  \pkgtcltk  . . . . . . . . . . . . . . . 12--17
              Matthew Pocernich   R's role in the climate change debate    17--18
                  Roger D. Peng   Interacting with Data using the
                                  \pkgfilehash Package . . . . . . . . . . 19--24
             Robin K. S. Hankin   Special functions in R: introducing the
                                  \pkggsl package  . . . . . . . . . . . . 24--26
           Wolfgang Lederer and   
         Helmut Küchenhoff   A short Introduction to the SIMEX and
                                  MCSIMEX  . . . . . . . . . . . . . . . . 26--31
                  Roger Koenker   Parametric Links for Binary Response . . 32--34
        Víctor Leiva and   
      Hugo Hernández and   
                 Marco Riquelme   A New Package for the Birnbaum--Saunders
                                  Distribution . . . . . . . . . . . . . . 35--40
                   Susan Holmes   Review of Fionn Murtagh's book:
                                  \booktitleCorrespondence Analysis and
                                  Data Coding with Java and R  . . . . . . 41--43
                     Uwe Ligges   R Help Desk: Accessing the Sources . . . 43--45

R News: the Newsletter of the R Project
Volume 6, Number 5, December, 2006

                    Li Long and   
                    Vince Carey   Graphs and Networks: Tools in
                                  Bioconductor . . . . . . . . . . . . . . 2--7
                    Seth Falcon   Modeling Package Dependencies Using
                                  Graphs . . . . . . . . . . . . . . . . . 8--12
                Oleg Sklyar and   
                 Wolfgang Huber   Image Analysis for Microscopy Screens    12--16
               Mark Dunning and   
                 Mike Smith and   
             Natalie Thorne and   
            Simon Tavaré   \pkgbeadarray: An R Package to Analyse
                                  Illumina BeadArrays  . . . . . . . . . . 17--23
            Matthew Ritchie and   
                 Wolfgang Huber   Transcript Mapping with High-Density
                                  Tiling Arrays  . . . . . . . . . . . . . 23--27
            Nolwenn Le Meur and   
                  Florian Hahne   Analyzing Flow Cytometry Data with
                                  Bioconductor . . . . . . . . . . . . . . 27--32
               Denise Scholtens   Protein Complex Membership Estimation
                                  using \pkgapComplex  . . . . . . . . . . 32--36
                    Vince Carey   SNP Metadata Access and Use with
                                  Bioconductor . . . . . . . . . . . . . . 36--39
                Steffen Durinck   Integrating Biological Data Resources
                                  into R with \pkgbiomaRt  . . . . . . . . 40--45
           Holger Schwender and   
             Andreas Krause and   
                 Katja Ickstadt   Identifying Interesting Genes with
                                  siggenes . . . . . . . . . . . . . . . . 45--50
       Juliane Schäfer and   
         Rainer Opgen-Rhein and   
             Korbinian Strimmer   Reverse Engineering Genetic Networks
                                  using the \pkgGeneNet Package  . . . . . 50--53
    Aedín C. Culhane and   
                Jean Thioulouse   A Multivariate Approach to Integrating
                                  Datasets using made4 and ade4  . . . . . 54--58
              Antoine Lucas and   
                 Sylvain Jasson   Using \pkgamap and \pkgctc Packages for
                                  Huge Clustering  . . . . . . . . . . . . 58--60
               Chris Fraley and   
              Adrian E. Raftery   Model-based Microarray Image Analysis    60--63
              Gregory R. Warnes   Sample Size Estimation for Microarray
                                  Experiments Using the ssize Package  . . 64--68


R News: the Newsletter of the R Project
Volume 7, Number 1, April, 2007

                   Paul Murrell   Viewing Binary Files with the
                                  \pkghexView Package  . . . . . . . . . . 2--8
          Bettina Grün and   
               Friedrich Leisch   \pkgFlexMix: An R Package for Finite
                                  Mixture Modelling  . . . . . . . . . . . 8--13
              Andrea Onofri and   
             Egidio Ciriciofolo   Using R to Perform the AMMI Analysis on
                                  Agriculture Variety Trials . . . . . . . 14--19
             Gemechis Dilba and   
        Frank Schaarschmidt and   
              Ludwig A. Hothorn   Inferences for Ratios of Normal Means    20--23
                 Gregor Gorjanc   Working with Unknown Values  . . . . . . 24--26
             Jochen Einbeck and   
                 John Hinde and   
                   Ross Darnell   A New Package for Fitting Random Effect
                                  Models . . . . . . . . . . . . . . . . . 26--30
                Andrew Robinson   Augmenting R with Unix Tools . . . . . . 30--33
                Mathieu Ribatet   \pkgPOT: Modelling Peaks Over a
                                  Threshold  . . . . . . . . . . . . . . . 34--36
              Kyle Campbell and   
                  Jeff Enos and   
             Daniel Gerlanc and   
                     David Kane   Backtests  . . . . . . . . . . . . . . . 36--41
                      Andy Liaw   Review of John Verzani's Book:
                                  \booktitleUsing R for Introductory
                                  Statistics . . . . . . . . . . . . . . . 41--42

R News: the Newsletter of the R Project
Volume 7, Number 2, October, 2007

                 Peter Dalgaard   New Functions for Multivariate Analysis  2--7
             Heather Turner and   
                    David Firth   \pkggnm: A Package for Generalized
                                  Nonlinear Models . . . . . . . . . . . . 8--12
          Jörg Polzehl and   
                 Karten Tabelow   \pkgfmri: A Package for Analyzing \tt
                                  fmri Data  . . . . . . . . . . . . . . . 13--17
                  Ben B. Hansen   \pkgOptmatch: Flexible, Optimal Matching
                                  for Observational Studies  . . . . . . . 18--24
            Hemant Ishwaran and   
               Udaya B. Kogalur   Random Survival Forests for R  . . . . . 25--31
             Richard Newton and   
                Lorenz Wernisch   \pkgRwui: A Web Application to Create
                                  User Friendly Web Interfaces for R
                                  Scripts  . . . . . . . . . . . . . . . . 32--35
           Tristen Hayfield and   
              Jeffrey S. Racine   The \pkgnp Package: Kernel Methods for
                                  Categorical and Continuous Data  . . . . 35--43
                 Olivia Lau and   
              Ryan T. Moore and   
             Michael Kellermann   \pkgeiPack: $ R \times C $ Ecological
                                  Inferences and Higher-Dimension Data
                                  Management . . . . . . . . . . . . . . . 43--47
       Stéphane Dray and   
             Anne B. Dufour and   
                 Daniel Chessel   The \pkgade4 Package --- II: Two-table
                                  and $K$-table Methods  . . . . . . . . . 47--52
               Friedrich Leisch   Review of ``The R Book'' . . . . . . . . 53--54

R News: the Newsletter of the R Project
Volume 7, Number 3, December, 2007

                Hee-Seok Oh and   
                    Donghoh Kim   \pkgSpherWave: An R Package for
                                  Analyzing Scattered Spherical Data by
                                  Spherical Wavelets . . . . . . . . . . . 2--7
      Sebastián P. Luque   Diving Behaviour Analysis in R . . . . . 8--14
             Robin K. S. Hankin   Very Large Numbers in R: Introducing
                                  Package \pkgBrobdingnag  . . . . . . . . 15--16
                 Alejandro Jara   Applied Bayesian Non- and
                                  Semi-parametric Inference using
                                  \pkgDPpackage  . . . . . . . . . . . . . 17--26
                   John Verzani   An Introduction to \pkggWidgets  . . . . 26--33
                    Bill Alpert   Financial Journalism with R  . . . . . . 34--36
           Sanford Weisberg and   
                 Hadley Wickham   Need A Hint? . . . . . . . . . . . . . . 36--38
               Patrick Mair and   
             Reinhold Hatzinger   Psychometrics Task View  . . . . . . . . 38--40
                Guido Schwarzer   \pkgmeta: An R Package for Meta-Analysis 40--45
                       John Fox   Extending the R Commander by ``Plug-In''
                                  Packages . . . . . . . . . . . . . . . . 46--52
           Sandra L. Taylor and   
         Duncan Temple Lang and   
           Katherine S. Pollard   Improvements to the Multiple Testing
                                  Package \pkgmulttest . . . . . . . . . . 52--55


R News: the Newsletter of the R Project
Volume 8, Number 1, May, 2008

                 Gregor Gorjanc   Using Sweave with LyX  . . . . . . . . . 2--9
                  Jeff Enos and   
                 David Kane and   
         Arjun Ravi Narayan and   
             Aaron Schwartz and   
                 Daniel Suo and   
                      Luyi Zhao   Trade Costs  . . . . . . . . . . . . . . 10--13
           Hormuzd A. Katki and   
                 Steven D. Mark   Survival Analysis for Cohorts with
                                  Missing Covariate Information  . . . . . 14--19
              Vito M. R. Muggeo   \pkgsegmented: An R package to Fit
                                  Regression Models with Broken-Line
                                  Relationships  . . . . . . . . . . . . . 20--25
           Cathy W. S. Chen and   
           Edward M. H. Lin and   
                  F. C. Liu and   
                Richard Gerlach   Bayesian Estimation for Parsimonious
                                  Threshold Autoregressive Models in R . . 26--33
             Vincent Goulet and   
                 Mathieu Pigeon   Statistical Modeling of Loss
                                  Distributions Using \pkgactuar . . . . . 34--40
             Robin K. S. Hankin   Programmers' Niche: Multivariate
                                  polynomials in R . . . . . . . . . . . . 41--45
                 Uwe Ligges and   
                       John Fox   R Help Desk: How Can I Avoid This Loop
                                  or Make It Faster? . . . . . . . . . . . 46--50

R News: the Newsletter of the R Project
Volume 8, Number 2, October, 2008

             Hadley Wickham and   
           Michael Lawrence and   
         Duncan Temple Lang and   
              Deborah F. Swayne   An Introduction to \pkgrggobi  . . . . . 3--7
         Carsten F. Dormann and   
               Bernd Gruber and   
              Jochen Fründ   Introducing the \pkgbipartite Package:
                                  Analysing Ecological Networks  . . . . . 8--11
               Ioannis Kosmidis   The \pkgprofileModel R Package:
                                  Profiling Objectives for Models with
                                  Linear Predictors  . . . . . . . . . . . 12--18
                  Ingo Feinerer   An Introduction to Text Mining in R  . . 19--22
                  Yihui Xie and   
                  Xiaoyue Cheng   \pkganimation: A Package for Statistical
                                  Animations . . . . . . . . . . . . . . . 23--27
                  Thomas W. Yee   The \pkgVGAM Package . . . . . . . . . . 28--39
                   Paul Murrell   Comparing Non-Identical Objects  . . . . 40--47
                A. Allignol and   
              J. Beyersmann and   
                  M. Schumacher   \pkgmvna: An R Package for the
                                  Nelson--Aalen Estimator in Multistate
                                  Models . . . . . . . . . . . . . . . . . 48--50
                    Vince Carey   Programmers' Niche: The Y of R . . . . . 51--53


The R Journal
Volume 1, Number 1, June, 2009

               John M. Chambers   Facets of R  . . . . . . . . . . . . . . 5--8
        Stefan Theußl and   
                  Achim Zeileis   Collaborative Software Development Using
                                  R-Forge  . . . . . . . . . . . . . . . . 9--14
                   Paul Murrell   Drawing Diagrams with R  . . . . . . . . 15--21
               Gregoire Pau and   
                 Wolfgang Huber   The \pkghwriter Package  . . . . . . . . 22--24
                David Ardia and   
     Lennart F. Hoogerheide and   
             Herman K. van Dijk   \pkgAdMit: Adaptive Mixtures of
                                  Student-$t$ Distributions  . . . . . . . 25--30
             Vincent Goulet and   
             Michel Jacques and   
                 Mathieu Pigeon   \pkgexpert: Modeling Without Data Using
                                  Expert Opinion . . . . . . . . . . . . . 31--36
                  Xuefei Mi and   
             Tetsuhisa Miwa and   
                Torsten Hothorn   \pkgmvtnorm: New Numerical Algorithm for
                                  Multivariate Normal Probabilities  . . . 37--39
                Donghoh Kim and   
                    Hee-Seok Oh   \pkgEMD: A Package for Empirical Mode
                                  Decomposition and Hilbert Spectrum . . . 40--46
                  Megan Orr and   
                       Peng Liu   Sample Size Estimation while Controlling
                                  False Discovery Rate for Microarray
                                  Experiments Using the \pkgssize.fdr
                                  Package  . . . . . . . . . . . . . . . . 47--53
               Jochen Knaus and   
        Christine Porzelius and   
              Harald Binder and   
                Guido Schwarzer   Easier Parallel Computing in R with
                                  \pkgsnowfall and \pkgsfCluster . . . . . 54--59
             Alex Guazzelli and   
             Michael Zeller and   
              Wen-Ching Lin and   
                Graham Williams   \pkgPMML: An Open Standard for Sharing
                                  Models . . . . . . . . . . . . . . . . . 60--65

The R Journal
Volume 1, Number 2, December, 2009

                       John Fox   Aspects of the Social Organization and
                                  Trajectory of the R Project  . . . . . . 5--13
             Carolin Strobl and   
            Torsten Hothorn and   
                  Achim Zeileis   Party on!  . . . . . . . . . . . . . . . 14--17
  Pierre Lafaye de Micheaux and   
               Beno\^\it Liquet   \pkgConvergenceConcepts: an R Package to
                                  Investigate-Various-Modes-of-Convergence 18--25
           J. F. Coeurjolly and   
               R. Drouilhet and   
      P. Lafaye de Micheaux and   
                 J. F. Robineau   \pkgasympTest: A Simple R Package for
                                  Classical Parametric Statistical Tests
                                  and Confidence Intervals in Large
                                  Samples  . . . . . . . . . . . . . . . . 26--30
               J. Carpenter and   
             G. Rücker and   
                   G. Schwarzer   \pkgcopas: An R Package for Fitting the
                                  Copas Selection Model  . . . . . . . . . 31--36
                 Anthony Damico   Transitioning to R: Replicating SAS,
                                  Stata, and SUDAAN Analysis Techniques in
                                  Health Policy Data . . . . . . . . . . . 37--44
             Graham J. Williams   \pkgRattle: A Data Mining GUI for R  . . 45--55
             Spencer Graves and   
           Sundar Dorai-Raj and   
         Romain François   \pkgsos: Searching Help Pages of R
                                  Packages . . . . . . . . . . . . . . . . 56--59
             Duncan Murdoch and   
                  Simon Urbanek   The New R Help System  . . . . . . . . . 60--65


The R Journal
Volume 2, Number 1, June, 2010

              Setia Pramana and   
                    Dan Lin and   
        Philippe Haldermans and   
                 Ziv Shkedy and   
             Tobias Verbeke and   
      Hinrich Göhlmann and   
                An De Bondt and   
             Willem Talloen and   
                    Luc Bijnens   \pkgIsoGene: An R Package for Analyzing
                                  Dose-response Studies in Microarray
                                  Experiments  . . . . . . . . . . . . . . 5--12
              Patrick Brown and   
                    Lutong Zhou   MCMC for Generalized Linear Mixed Models
                                  with \pkgglmmBUGS  . . . . . . . . . . . 13--17
           Nils B. Weidmann and   
      Kristian Skrede Gleditsch   Mapping and Measuring Country Shapes . . 18--24
             Stefan Wilhelm and   
                B. G. Manjunath   \pkgtmvtnorm: A Package for the
                                  Truncated Multivariate Normal
                                  Distribution . . . . . . . . . . . . . . 25--29
        Frauke Günther and   
                 Stefan Fritsch   \pkgneuralnet: Training of Neural
                                  Networks . . . . . . . . . . . . . . . . 30--38
               Wiebke Werft and   
                    Axel Benner   \pkgglmperm: A Permutation of Regressor
                                  Residuals Test for Inference in
                                  Generalized Linear Models  . . . . . . . 39--43
            Jean Thioulouse and   
       Claire Valiente-Moro and   
                  Lionel Zenner   Online Reproducible Research: An
                                  Application to Multivariate Analysis of
                                  Bacterial DNA Fingerprint Data . . . . . 44--52
                 Michael P. Fay   Two-sided Exact Tests and Matching
                                  Confidence Intervals for Discrete Data   53--58

The R Journal
Volume 2, Number 2, December, 2010

           Karline Soetaert and   
            Thomas Petzoldt and   
              R. Woodrow Setzer   Solving Differential Equations in R  . . 5--15
                 Duncan Murdoch   Source References  . . . . . . . . . . . 16--19
  Lars Rönnegård and   
                   Xia Shen and   
                    Moudud Alam   \pkghglm: A Package for Fitting
                                  Hierarchical Generalized Linear Models   20--28
    Péter Sólymos   \pkgdclone: Data Cloning in R  . . . . . 29--37
                 Hadley Wickham   \pkgstringr: Modern, Consistent String
                                  Processing . . . . . . . . . . . . . . . 38--40
                David Ardia and   
         Lennart F. Hoogerheide   Bayesian Estimation of the GARCH(1,1)
                                  Model with Student-$t$ Innovations . . . 41--47
      Adelino Ferreira da Silva   \pkgcudaBayesreg: Bayesian Computation
                                  in CUDA  . . . . . . . . . . . . . . . . 48--55
      Christopher R. Bilder and   
                 Boan Zhang and   
        Frank Schaarschmidt and   
                Joshua M. Tebbs   \pkgbinGroup: A Package for Group
                                  Testing  . . . . . . . . . . . . . . . . 56--60
              Murat Sariyar and   
                   Andreas Borg   The \pkgRecordLinkage Package: Detecting
                                  Errors in Data . . . . . . . . . . . . . 61--67
            Hemant Ishwaran and   
           Udaya B. Kogalur and   
                   J. Sunil Rao   \pkgspikeslab: Prediction and Variable
                                  Selection Using Spike and Slab
                                  Regression . . . . . . . . . . . . . . . 68--73


The R Journal
Volume 3, Number 1, June, 2011

                 Hadley Wickham   \pkgtestthat: Get Started with Testing   5--10
                Angela Bohn and   
              Ingo Feinerer and   
                Kurt Hornik and   
                   Patrick Mair   Content-Based Social Network Analysis of
                                  Mailing Lists  . . . . . . . . . . . . . 11--18
              Yohan Chalabi and   
        Martin Mächler and   
            Diethelm Würtz   \pkgRmetrics --- \pkgtimeDate Package    19--24
         Timothée Poisot   The \pkgdigitize Package: Extracting
                                  Numerical Data from Scatterplots . . . . 25--26
                David Ardia and   
                 Kris Boudt and   
                 Peter Carl and   
        Katharine M. Mullen and   
              Brian G. Peterson   Differential Evolution with \pkgDEoptim  27--34
                     Andy South   \pkgrworldmap: A New R Package for
                                  Mapping Global Data  . . . . . . . . . . 35--43
Frédéric Lafitte and   
             Dirk Van Heule and   
               Julien Van hamme   Cryptographic Boolean Functions with R   44--47
                   Paul Murrell   Raster Images in R Graphics  . . . . . . 48--54
               Chris Fraley and   
             Adrian Raftery and   
           Tilmann Gneiting and   
           McLean Sloughter and   
              Veronica Berrocal   Probabilistic Weather Forecasting in R   55--63
                 David Kane and   
                 Andrew Liu and   
                   Khanh Nguyen   Analyzing an Electronic Limit Order Book 64--68
                 Rob J. Hyndman   Giving a useR! Talk  . . . . . . . . . . 69--71
                    Dianne Cook   Tips for Presenting Your Work  . . . . . 72--74

The R Journal
Volume 3, Number 2, December, 2011

               Thomas Baier and   
             Erich Neuwirth and   
                 Michele De Meo   Creating and Deploying an Application
                                  with (R)Excel and R  . . . . . . . . . . 5--11
               Ian C. Marschner   \pkgglm2: Fitting Generalized Linear
                                  Models with Convergence Problems . . . . 12--15
               Michael Lundholm   Implementing the Compendium Concept with
                                  Sweave and DOCSTRIP  . . . . . . . . . . 16--21
                Kurt Hornik and   
                 Duncan Murdoch   Watch Your Spelling! . . . . . . . . . . 22--28
               Haizhou Wang and   
                  Mingzhou Song   \pkgCkmeans.1d.dp: Optimal $k$-means
                                  Clustering in One Dimension by Dynamic
                                  Programming  . . . . . . . . . . . . . . 29--33
           Taylor B. Arnold and   
                John W. Emerson   Nonparametric Goodness-of-Fit Tests for
                                  Discrete Null Distributions  . . . . . . 34--39
             Markus Gesmann and   
              Diego de Castillo   Using the Google Visualisation API with
                                  R  . . . . . . . . . . . . . . . . . . . 40--44
            Maxime Hervé   \pkgGrapheR: a Multiplatform GUI for
                                  Drawing Customizable Graphs in R . . . . 45--53
                  Han Lin Shang   \pkgrainbow: An R Package for
                                  Visualizing Functional Time Series . . . 54--59
                 Martyn Plummer   Portable C++ for R Packages  . . . . . . 60--63


The R Journal
Volume 4, Number 1, June, 2012

          Adrian G. Barnett and   
                Peter Baker and   
              Annette J. Dobson   Analysing Seasonal Data  . . . . . . . . 5--10
        Elizabeth E. Holmes and   
               Eric J. Ward and   
                   Kellie Wills   \pkgMARSS: Multivariate Autoregressive
                                  State-space Models for Analyzing
                                  Time-series Data . . . . . . . . . . . . 11--19
               Karl Ropkins and   
               David C. Carslaw   openair --- Data Analysis Tools for the
                                  Air Quality Community  . . . . . . . . . 20--29
                   Daniel Adler   Foreign Library Interface  . . . . . . . 30--40
                    John Lawson   \pkgVdgraph: A Package for Creating
                                  Variance Dispersion Graphs . . . . . . . 41--44
             Sarah C. Anoke and   
                Yuting Zhao and   
              Rafael Jaeger and   
             Nicholas J. Horton   xgrid and R: Parallel Distributed
                                  Processing Using Heterogeneous Groups of
                                  Apple Computers  . . . . . . . . . . . . 45--55
               Timothy P. Jurka   \pkgmaxent: An R Package for Low-memory
                                  Multinomial Logistic Regression with
                                  Support for Semi-automated Text
                                  Classification . . . . . . . . . . . . . 56--59
         Timothy T. Bergsma and   
               Michael S. Smith   \pkgSumo: An Authenticating Web
                                  Application with an Embedded R Session   60--63
                Kurt Hornik and   
             Duncan Murdoch and   
                  Achim Zeileis   Who Did What? The Roles of R Package
                                  Authors and How to Refer to Them . . . . 64--69

The R Journal
Volume 4, Number 2, December, 2012

                   Paul Murrell   What's in a Name?  . . . . . . . . . . . 5--12
                   Paul Murrell   It's Not What You Draw, It's What You
                                  Don't Draw . . . . . . . . . . . . . . . 13--18
               Paul Murrell and   
                      Velvet Ly   Debugging grid Graphics  . . . . . . . . 19--27
                   Il Do Ha and   
              Maengseok Noh and   
                    Youngjo Lee   \pkgfrailtyHL: A Package for Fitting
                                  Frailty Models with $H$-likelihood . . . 28--37
          Rense Nieuwenhuis and   
      Manfred te Grotenhuis and   
                     Ben Pelzer   \pkginfluence.ME: Tools for Detecting
                                  Influential Data in Mixed Effects Models 38--47
               Zhenghua Nie and   
              Jeffrey S. Racine   The \pkgcrs Package: Nonparametric
                                  Regression Splines for Continuous and
                                  Categorical Predictors . . . . . . . . . 48--56
              John D. Kloke and   
               Joseph W. McKean   \pkgRfit: Rank-based Estimation for
                                  Linear Models  . . . . . . . . . . . . . 57--64
             Kayvan Sadeghi and   
          Giovanni M. Marchetti   Graphical Markov Models with Mixed
                                  Graphs in R  . . . . . . . . . . . . . . 65--73
       Rasmus Bååth   The State of Naming Conventions in R . . 74--75


The R Journal
Volume 5, Number 1, June, 2013

                 Hadley Wickham   Editorial  . . . . . . . . . . . . . . . 4--6
          Loren Collingwood and   
           Timothy P. Jurka and   
          Amber E. Boydstun and   
          Emiliano Grossman and   
           Wouter van Atteveldt   \pkgRTextTools: A Supervised Learning
                                  Package for Text Classification  . . . . 6--13
                 Yang Xiang and   
             Sylvain Gubian and   
              Brian Suomela and   
                    Julia Hoeng   Generalized Simulated Annealing for
                                  Global Optimization: the \pkgGenSA
                                  Package for R  . . . . . . . . . . . . . 13--29
             Belchin Kostov and   
Mónica Bécue-Bertaut and   
         François Husson   Multiple Factor Analysis on Contingency
                                  Tables in the \pkgFactoMineR Package . . 29--39
                   John Fox and   
           Michael Friendly and   
               Sanford Weisberg   Hypothesis Tests for Multivariate Linear
                                  Models Using the \pkgcar Package . . . . 39--53
       Manuel J. A. Eugster and   
             Thomas Schlesinger   \pkgosmar: \pkgOpenStreetMap and R . . . 53--64
                      Han Shang   \pkgftsa: An R Package for Analyzing
                                  Functional Time Series . . . . . . . . . 64--73
         A. Jonathan R. Godfrey   Statistical Analysis from a Blind
                                  Person's Perspective . . . . . . . . . . 73--80
                 Paolo Zagaglia   \pkgPIN: Measuring Asymmetric
                                  Information in Financial Markets with R  80--87
                Alrik Thiem and   
                    Adrian Dusa   \pkgQCA: A Package for Qualitative
                                  Comparative Analysis . . . . . . . . . . 87--98
           Mathieu Colleter and   
             Jerome Guitton and   
                 Didier Gascuel   An Introduction to the EcoTroph R
                                  package: Analyzing Aquatic Ecosystem
                                  Trophic Network  . . . . . . . . . . . . 98--108
                Giada Valle and   
           Matteo Dell'Omodarme   \pkgstellaR: a Package to Manage Stellar
                                  Evolution Tracks and Isochrones  . . . . 108--117
              Heike Hofmann and   
               Antony Unwin and   
                    Dianne Cook   Let Graphics Tell the Story --- Datasets
                                  in R . . . . . . . . . . . . . . . . . . 117--130
             Stefan Wilhelm and   
        Miguel Godinho de Matos   Estimating Spatial Probit Models in R    130--144
                David Kahle and   
                 Hadley Wickham   \pkgggmap: Spatial Visualization with
                                  \pkgggplot2  . . . . . . . . . . . . . . 144--162
                    David Kahle   \pkgmpoly: Multivariate Polynomials in R 162--171
   Anyiawung Chiara Forcheh and   
              Geert Verbeke and   
              Adetayo Kasim and   
                    Dan Lin and   
                 Ziv Shkedy and   
             Willem Talloen and   
    Hinrich W. H. Goehlmann and   
                 Lieven Clement   The beadarrayFilter: An R Package to
                                  Filter Beads . . . . . . . . . . . . . . 171--181
            Lee S. McDaniel and   
      Nicholas C. Henderson and   
                Paul J. Rathouz   Fast Pure R Implementation of GEE:
                                  Application of the \pkgMatrix Package    181--188
        Milan Bouchet-Valat and   
                  Gilles Bastin   RcmdrPlugin.temis, a Graphical
                                  Integrated Text Mining Solution in R . . 188--197
                    Jeroen Ooms   Directions for Improved Dependency
                                  Versioning in R  . . . . . . . . . . . . 197--207
              David LeBauer and   
             Michael Dietze and   
                     Ben Bolker   Translating Probability Distributions:
                                  From R to BUGS and Back Again  . . . . . 207--210
                  Jing Leng and   
                  Jingjing Guan   Conference Review: The 6th Chinese R
                                  Conference . . . . . . . . . . . . . . . 210--212
                  Joshua Ulrich   Conference Report: R/Finance 2013  . . . 212--215
 UseR 2013 Organising Committee   The R User Conference 2013 . . . . . . . 215--218
              Bioconductor Team   News from the Bioconductor Project . . . 218--220
                    Kurt Hornik   R Foundation News  . . . . . . . . . . . 220--221
                The R.Core Team   Changes in R . . . . . . . . . . . . . . 221--239
                Kurt Hornik and   
                  Achim Zeileis   Changes on CRAN  . . . . . . . . . . . . 239--264

The R Journal
Volume 5, Number 2, December, 2013

                 Hadley Wickham   Editorial  . . . . . . . . . . . . . . . 3--4
          David A. Armstrong II   \pkgfactorplot: Improving Presentation
                                  of Simple Contrasts in GLMs  . . . . . . 4--16
                   Luca Sartore   \pkgspMC: Modelling Spatial Random
                                  Fields with Continuous Lag Markov Chains 16--29
               Pavel Michna and   
                   Milton Woods   RNetCDF --- A Package for Reading and
                                  Writing NetCDF Datasets  . . . . . . . . 29--37
            Stefan Roediger and   
             Alexander Bohm and   
                 Ingolf Schimke   Surface Melting Curve Analysis with R    37--53
                    Yang Lu and   
                     David Kane   Performance Attribution for Equity
                                  Portfolios . . . . . . . . . . . . . . . 53--62
               Weizhen Wang and   
                    Guogen Shan   \pkgExactCIdiff: An R Package for
                                  Computing Exact Confidence Intervals for
                                  the Difference of Two Proportions  . . . 62--71
            Yusuf K. Bilgic and   
                   Herb Susmann   \pkgrlme: An R Package for Rank-Based
                                  Estimation and Prediction in Random
                                  Effects Nested Models  . . . . . . . . . 71--80
              Christoph Sax and   
                  Peter Steiner   Temporal Disaggregation of Time Series   80--88
              Stefan Boehringer   Dynamic Parallelization of R Functions   88--97
               S. Nadarajah and   
                 S. A. A. Bakar   \pkgCompLognormal: An R Package for
                                  Composite Lognormal Distributions  . . . 97--104
                    Simen Gaure   \pkglfe: Fitting Linear Models with
                                  Multiple Factors with Many Levels  . . . 104--117
      André Dietrich and   
              Sebastian Zug and   
               Jörg Kaiser   The R in Robotics  . . . . . . . . . . . 117--129
                  Marius Hofert   On Sampling from the Multivariate $t$
                                  Distribution . . . . . . . . . . . . . . 129--137
                Genaro Sucarrat   \pkgbetategarch: Simulation, Estimation
                                  and Forecasting of Beta-Skew-$t$-EGARCH
                                  Models . . . . . . . . . . . . . . . . . 137--148
                   Paul Murrell   Changes to \pkggrid from 3.0.0 . . . . . 148--161
                    Kurt Hornik   R Foundation News  . . . . . . . . . . . 161--162
              Bioconductor Team   News from the Bioconductor Project . . . 162--164
        Aurelie Siberchicot and   
                  Stephane Dray   Conference Report: Deuxi\`emes
                                  Rencontres R . . . . . . . . . . . . . . 164--166
                Kurt Hornik and   
                  Achim Zeileis   Changes on CRAN  . . . . . . . . . . . . 166--192
                The R.Core Team   Changes in R . . . . . . . . . . . . . . 192--198


The R Journal
Volume 6, Number 1, June, 2014

                Deepayan Sarkar   Editorial  . . . . . . . . . . . . . . . 3--3
                 Carson Sievert   Taming \pkgPITCHf/x Data with \pkgXML2R
                                  and \pkgpitchRx  . . . . . . . . . . . . 5--19
           Matthew A. Nunes and   
            Sarah L. Taylor and   
                Idris A. Eckley   Stationarity Testing and Texture
                                  Counting in R  . . . . . . . . . . . . . 20--30
               Xiangdong Gu and   
              David Shapiro and   
          Michael D. Hughes and   
           Raji Balasubramanian   Stratified Weibull Regression Model for
                                  Interval-Censored Data . . . . . . . . . 31--40
             John Muschelli and   
          Elizabeth Sweeney and   
            Ciprian Crainiceanu   \pkgbrainR: Interactive $3$ and $4$D
                                  Images of High Resolution Neuroimage
                                  Data . . . . . . . . . . . . . . . . . . 41--48
          Dominik Wabersich and   
         Joachim Vandekerckhove   The \pkgRWiener Package: An R Package
                                  Providing Distribution Functions for the
                                  Wiener Diffusion Model . . . . . . . . . 49--56
                       Hai Qian   \pkgPivotalR: A Package for Machine
                                  Learning on Big Data . . . . . . . . . . 57--67
             Bryan Stanfill and   
              Heike Hofmann and   
                Ulrike Genschel   \pkgrotations: An R Package for SO(3)
                                  Data . . . . . . . . . . . . . . . . . . 68--78
            Nicola Lunardon and   
           Giovanna Menardi and   
                 Nicola Torelli   \pkgROSE: A Package for Class Imbalance
                                  Learning . . . . . . . . . . . . . . . . 79--89
       Brandon M. Greenwell and   
   Christine M. Schubert Kabban   \pkginvestr: An R Package for Inverse
                                  Estimation . . . . . . . . . . . . . . . 90--100
             Julien Jacques and   
         Quentin Grimonprez and   
           Christophe Biernacki   \pkgRankcluster: An R Package For
                                  Clustering Multivariate Partial Rankings 101--110
               Mark van der Loo   \pkgstringdist: an R Package for
                                  Approximate String Matching  . . . . . . 111--122
                Maurits Kaptein   \pkgRStorm: Developing and Testing
                                  Streaming Algorithms in R  . . . . . . . 123--132
               Paul Murrell and   
                   Simon Potter   The \pkggridSVG Package  . . . . . . . . 133--143
          Natalie A. Koziol and   
          Christopher R. Bilder   \pkgMRCV: A Package for Analyzing
                                  Categorical Variables with Multiple
                                  Response Options . . . . . . . . . . . . 144--150
               Thomas J. Leeper   Archiving Reproducible Research with R
                                  and Dataverse  . . . . . . . . . . . . . 151--158
            Daniel Bottomly and   
                Beth Wilmot and   
            Shannon K. McWeeney   \pkgoligoMask: A Framework for Assessing
                                  and Removing the Effect of Genetic
                                  Variants on Microarray Probes  . . . . . 159--163
             Luigi Lombardi and   
           Massimiliano Pastore   \pkgsgr: A Package for Simulating
                                  Conditional Fake Ordinal Data  . . . . . 164--177
               Patrick Mair and   
              Scott Chamberlain   Web Technologies Task View . . . . . . . 178--181
     A. Jonathan R. Godfrey and   
                 Robert Erhardt   Addendum to ``Statistical Software from
                                  a Blind Person's Perspective'' . . . . . 182--182
                    Kurt Hornik   R Foundation News  . . . . . . . . . . . 183--183
              Bioconductor Team   News from the Bioconductor Project . . . 184--185
                Kurt Hornik and   
                  Achim Zeileis   Changes on CRAN  . . . . . . . . . . . . 186--220
                The R.Core Team   Changes in R . . . . . . . . . . . . . . 221--235

The R Journal
Volume 6, Number 2, December, 2014

                Deepayan Sarkar   Editorial  . . . . . . . . . . . . . . . 3--3
                  Andrea Stocco   Coordinate-Based Meta-Analysis of fMRI
                                  Studies with R . . . . . . . . . . . . . 5--15
                       Jimmy Oh   Automatic Conversion of Tables to
                                  oLongForm Dataframes . . . . . . . . . . 16--26
             Jonathan Zhang and   
              Nancy Heckman and   
             Davor Cubranic and   
         Joel G. Kingsolver and   
              Travis Gaydos and   
                   J. S. Marron   \pkgPrinsimp . . . . . . . . . . . . . . 27--42
            Michael J. Grayling   \pkgphaseR: An R Package for Phase Plane
                                  Analysis of Autonomous ODE Systems . . . 43--51
        Dane R. Van Domelen and   
             W. Stephen Pittard   Flexible R Functions for Processing
                                  Accelerometer Data, with Emphasis on
                                  NHANES 2003--2006  . . . . . . . . . . . 52--62
               Kieran Alden and   
                  Mark Read and   
            Paul S. Andrews and   
                 Jon Timmis and   
                     Mark Coles   Applying \pkgspartan to Understand
                                  Parameter Uncertainty in Simulations . . 63--80
                    John Hughes   \pkgngspatial: A Package for Fitting the
                                  Centered Autologistic and Sparse Spatial
                                  Generalized Linear Mixed Models for
                                  Areal Data . . . . . . . . . . . . . . . 81--95
         Irene Castro-Conde and   
Jacobo de Uña-Álvarez   \pkgsgof: An R Package for Multiple
                                  Testing Problems . . . . . . . . . . . . 96--113
               Paola Rebora and   
                 Agus Salim and   
                   Marie Reilly   \pkgbshazard: A Flexible Tool for
                                  Nonparametric Smoothing of the Hazard
                                  Function . . . . . . . . . . . . . . . . 114--122
Ben Dêivide Oliveira Batista and   
        Daniel Furtado Ferreira   \pkgSMR: An R Package for Computing the
                                  Externally Studentized Normal Midrange
                                  Distribution . . . . . . . . . . . . . . 123--136
                  Rune Hoff and   
           Jon Michael Gran and   
                Daniel Farewell   Farewell's Linear Increments Model for
                                  Missing Data: The \pkgFLIM Package . . . 137--150
             Selcuk Korkmaz and   
            Dincer Goksuluk and   
                Gokmen Zararsiz   \pkgMVN: An R Package for Assessing
                                  Multivariate Normality . . . . . . . . . 151--162
                   Aiora Zabala   \pkgqmethod: A Package to Explore Human
                                  Perspectives Using Q Methodology . . . . 163--173
                       Fang Liu   \pkggset: An R Package for Exact
                                  Sequential Test of Equivalence
                                  Hypothesis Based on Bivariate
                                  Non-Central $t$-Statistics . . . . . . . 174--184
             Markus Gesmann and   
               Andreas Tsanakas   Conference Report: R in Insurance 2014   185--186
        Maciej Ber\kesewicz and   
           Alicja Szabelska and   
     Joanna Zyprych-Walczak and   
              \Lukasz Wawrowski   Conference Report: Polish Academic R
                                  User Meeting . . . . . . . . . . . . . . 187--189
        Martin Mächler and   
                    Kurt Hornik   R Foundation News  . . . . . . . . . . . 190--191
                Kurt Hornik and   
                  Achim Zeileis   Changes on CRAN  . . . . . . . . . . . . 192--223
                The R.Core Team   Changes in R . . . . . . . . . . . . . . 224--226
          The Bioconductor Team   News from the Bioconductor Project . . . 227--228


The R Journal
Volume 7, Number 1, June, 2015

              Bettina Grün   Editorial  . . . . . . . . . . . . . . . 3
              Daniel Osorio and   
Paola Rondón-Villarreal and   
                 Rodrigo Torres   \pkgPeptides: A Package for Data Mining
                                  of Antimicrobial Peptides  . . . . . . . 4--14
                       Guy Abel   \pkgfanplot: An R Package for
                                  Visualising Sequential Distributions . . 15--23
             Matthias Templ and   
          Alexander Kowarik and   
                Bernhard Meindl   \pkgsparkTable: Generating Graphical
                                  Tables for Websites and Documents with R 24--37
         Matias D. Cattaneo and   
         Sebastian Calonico and   
                 Rocio Titiunik   \pkgrdrobust: An R Package for Robust
                                  Inference in Regression-Discontinuity
                                  Designs  . . . . . . . . . . . . . . . . 38--51
              Antonio Arcos and   
               David Molina and   
     Maria Giovanna Ranalli and   
     María del Mar Rueda   \pkgFrames2: A Package for Estimation in
                                  Dual Frame Surveys . . . . . . . . . . . 52--72
                   Robin Hankin   The Complex Multivariate Gaussian
                                  Distribution . . . . . . . . . . . . . . 73--80
              Isabel Molina and   
              Yolanda Marhuenda   \pkgsae: An R Package for Small Area
                                  Estimation . . . . . . . . . . . . . . . 81--98
                     Yixuan Qiu   \pkgshowtext: Using System Fonts in R
                                  Graphics . . . . . . . . . . . . . . . . 99--108
             Belchin Kostov and   
Mónica Bécue-Bertaut and   
         François Husson   Correspondence Analysis on Generalised
                                  Aggregated Lexical Table (CA-GALT) in
                                  the \pkgFactoMineR Package . . . . . . . 109--117
                Shawn T. O'Neil   Implementing Persistent $ O(1) $ Stacks
                                  and Queues in R  . . . . . . . . . . . . 118--126
        Stefan Rödiger and   
       Micha\l Burdukiewicz and   
   Konstantin Blagodatskikh and   
               Michael Jahn and   
                Peter Schierack   R as an Environment for Reproducible
                                  Analysis of DNA Amplification
                                  Experiments  . . . . . . . . . . . . . . 127--150
                   Paul Murrell   The \pkggridGraphics Package . . . . . . 151--162
             John Muschelli and   
       Elizabeth M. Sweeney and   
           Martin Lindquist and   
         Ciprian M. Crainiceanu   \pkgfslr: Connecting the FSL Software
                                  with R . . . . . . . . . . . . . . . . . 163--175
        Michael Baumgartner and   
                    Alrik Thiem   Identifying Complex Causal Dependencies
                                  in Configurational Data with Coincidence
                                  Analysis . . . . . . . . . . . . . . . . 176--184
                  Eric Hare and   
               Andreas Buja and   
                  Heike Hofmann   Manipulation of Discrete Random
                                  Variables with \pkgdiscreteRV  . . . . . 185--194
               Russell V. Lenth   Estimability Tools for Package
                                  Developers . . . . . . . . . . . . . . . 195--199
        Martin Mächler and   
                    Kurt Hornik   R Foundation News  . . . . . . . . . . . 200
                Kurt Hornik and   
                  Achim Zeileis   Changes on CRAN  . . . . . . . . . . . . 201--226
                The R.Core Team   Changes in R . . . . . . . . . . . . . . 227--238
          The Bioconductor Team   News from the Bioconductor Project . . . 239--240

The R Journal
Volume 7, Number 2, December, 2015

              Bettina Grün   Editorial  . . . . . . . . . . . . . . . 4--4
                Moudud Alam and   
  Lars Rönnegård and   
                       Xia Shen   Fitting Conditional and Simultaneous
                                  Autoregressive Spatial Models in
                                  \pkghglm . . . . . . . . . . . . . . . . 5--18
               Robin Genuer and   
          Jean-Michel Poggi and   
         Christine Tuleau-Malot   \pkgVSURF: an R Package for Variable
                                  Selection Using Random Forests . . . . . 19--33
                   Fang Liu and   
                  Yunchuan Kong   \pkgzoib: an R Package for Bayesian
                                  Inference for Beta Regression and
                                  Zero/One Inflated Beta Regression  . . . 34--51
                   Bent Nielsen   \pkgapc: an R Package for
                                  Age--Period--Cohort Analysis . . . . . . 52--64
          Isabelle Charlier and   
           Davy Paindaveine and   
    Jérôme Saracco   \pkgQuantifQuantile: an R Package for
                                  Performing Quantile Regression Through
                                  Optimal Quantization . . . . . . . . . . 65--80
             Robin K. S. Hankin   Numerical Evaluation of the Gauss
                                  Hypergeometric Function with the
                                  \pkghypergeo Package . . . . . . . . . . 81--88
        Pablo J. Villacorta and   
     José A. Sáez   \pkgSRCS: Statistical Ranking Color
                                  Scheme for Visualizing Parameterized
                                  Multiple Pairwise Comparisons with R . . 89--104
               Ainhoa Vega-Bayo   An R Package for the Panel Approach
                                  Method for Program Evaluation: \pkgpampe 105--121
               Kuo-Jung Lee and   
                  Ray-Bing Chen   \pkgBSGS: Bayesian Sparse Group
                                  Selection  . . . . . . . . . . . . . . . 122--133
            Evelyne Vigneau and   
               Mingkun Chen and   
             El Mostafa Qannari   \pkgClustVarLV: an R Package for the
                                  Clustering of Variables Around Latent
                                  Variables  . . . . . . . . . . . . . . . 134--148
           Francisco Charte and   
                   David Charte   Working with Multilabel Datasets in R:
                                  The \pkgmldr Package . . . . . . . . . . 149--162
           Richard Valliant and   
              Jill A. Dever and   
                 Frauke Kreuter   \pkgPracTools: Computations for Design
                                  of Finite Population Samples . . . . . . 163--176
                Kangwon Seo and   
                       Rong Pan   \pkgALTopt: an R Package for Optimal
                                  Experimental Design of Accelerated Life
                                  Testing  . . . . . . . . . . . . . . . . 177--188
           Matthew A. Nunes and   
                 Dennis Prangle   \pkgabctools: an R Package for Tuning
                                  Approximate Bayesian Computation
                                  Analyses . . . . . . . . . . . . . . . . 189--205
                 Juhui Wang and   
              Robert Faivre and   
       Hervé Richard and   
             Hervé Monod   \pkgmtk: a General-Purpose and
                                  Extensible R Environment for Uncertainty
                                  and Sensitivity Analyses of Numerical
                                  Experiments  . . . . . . . . . . . . . . 206--226
          Samuel E. Buttrey and   
                Lyn R. Whitaker   \pkgtreeClust: an R Package for
                                  Tree-Based Clustering Dissimilarities    227--236
              Hideitsu Hino and   
                 Ken Takano and   
                  Noboru Murata   \pkgmmpp: a Package for Calculating
                                  Similarity and Distance Metrics for
                                  Simple and Marked Temporal Point
                                  Processes  . . . . . . . . . . . . . . . 237--248
       Michael C. Koohafkan and   
               Bassam A. Younis   Open-Channel Computation with R  . . . . 249--262
        David Moriña and   
            Manuel Higueras and   
                 Pedro Puig and   
          María Oliveira   Generalized Hermite Distribution
                                  Modelling with the R Package \pkghermite 263--274
                Angel Rubio and   
             Fernando de Villar   Code Profiling in R: a Review of
                                  Existing Methods and an Introduction to
                                  Package \pkgGUIProfiler  . . . . . . . . 275--287
                 Martyn Plummer   The R Consortium and the R Foundation    288--288
              Torben Tvedebrink   Conference Report: useR! 2015  . . . . . 289--290
          The Bioconductor Team   News from the Bioconductor Project . . . 291--292
                The R Core Team   Changes in R . . . . . . . . . . . . . . 293--297
                Kurt Hornik and   
                  Achim Zeileis   Changes on CRAN  . . . . . . . . . . . . 298--339


The R Journal
Volume 8, Number 1, August, 2016

               Michael Lawrence   Editorial  . . . . . . . . . . . . . . . 4--4
                   Ken J. Beath   \pkgmetaplus: an R Package for the
                                  Analysis of Robust Meta-Analysis and
                                  Meta-Regression  . . . . . . . . . . . . 5--16
                     Kamil Wais   Gender Prediction Methods Based on First
                                  Names with \pkggenderizeR  . . . . . . . 17--37
          Alexandre Brouste and   
              Jacques Istas and   
         Sophie Lambert-Lacroix   Conditional Fractional Gaussian Fields
                                  with the Package \pkgFieldSim  . . . . . 38--47
                Haydar Demirhan   \pkgrTableICC: an R Package for Random
                                  Generation of 22K and RC Contingency
                                  Tables . . . . . . . . . . . . . . . . . 48--63
               Patrick E. Brown   Maps, Coordinate Reference Systems and
                                  Visualising Geographic Data with
                                  \pkgmapmisc  . . . . . . . . . . . . . . 64--91
              Lo\"\ic Yengo and   
             Julien Jacques and   
       Christophe Biernacki and   
                Mickael Canouil   Variable Clustering in High-Dimensional
                                  Linear Regression: The R Package
                                  \pkgclere  . . . . . . . . . . . . . . . 92--106
                Maciej Eder and   
                Jan Rybicki and   
                 Mike Kestemont   Stylometry with R: a Package for
                                  Computational Text Analysis  . . . . . . 107--121
             Daniel Linares and   
      Joan López-Moliner   \pkgquickpsy: an R Package to Fit
                                  Psychometric Functions for Multiple
                                  Groups . . . . . . . . . . . . . . . . . 122--131
              Marta Sestelo and   
         Nora M. Villanueva and   
         Luis Meira-Machado and   
    Javier Roca-Pardiñas   \pkgFWDselect: an R Package for Variable
                                  Selection in Regression Models . . . . . 132--148
            Mitchell Joblin and   
               Wolfgang Mauerer   An Interactive Survey Application for
                                  Validating Social Network Analysis
                                  Techniques . . . . . . . . . . . . . . . 149--158
      Christopher T. Franck and   
               Jason A. Osborne   Exploring Interaction Effects in
                                  Two-Factor Studies using the hiddenf
                                  Package in R . . . . . . . . . . . . . . 159--172
           Jakob W. Messner and   
              Georg J. Mayr and   
                  Achim Zeileis   Heteroscedastic Censored and Truncated
                                  Regression with \pkgcrch . . . . . . . . 173--181
         Joshua N. Pritikin and   
               Karen M. Schmidt   Model Builder for Item Factor Analysis
                                  with \pkgOpenMx  . . . . . . . . . . . . 182--203
       Benedikt Gräler and   
              Edzer Pebesma and   
               Gerard Heuvelink   Spatio-Temporal Interpolation using
                                  \pkggstat  . . . . . . . . . . . . . . . 204--218
                 Marcus W. Beck   \pkgSWMPr: an R Package for Retrieving,
                                  Organizing, and Analyzing Environmental
                                  Data for Estuaries . . . . . . . . . . . 219--232
            Haydar Demirhan and   
                  Nihan Bitirim   \pkgCryptRndTest: an R Package for
                                  Testing the Cryptographic Randomness . . 233--247
                Borja Calvo and   
   Guzmán Santafé   \pkgscmamp: Statistical Comparison of
                                  Multiple Algorithms in Multiple Problems 248--256
                  Weihua An and   
                    Yu-Hsin Liu   \pkgkeyplayer: an R Package for Locating
                                  Key Players in Social Networks . . . . . 257--268
               Michael J. North   \pkgSchemaOnRead: a Package for
                                  Schema-on-Read in R  . . . . . . . . . . 269--275
               Thomas J. Leeper   Crowdsourced Data Preprocessing with R
                                  and Amazon Mechanical Turk . . . . . . . 276--288
               Luca Scrucca and   
                Michael Fop and   
          T. Brendan Murphy and   
              Adrian E. Raftery   \pkgmclust 5: Clustering, Classification
                                  and Density Estimation Using Gaussian
                                  Finite Mixture Models  . . . . . . . . . 289--317
               Tibor Szkaliczki   \pkgclustering.sc.dp: Optimal Clustering
                                  with Sequential Constraint by Using
                                  Dynamic Programming  . . . . . . . . . . 318--327
              Chenyue W. Hu and   
                 Amina A. Qutub   \pkgprogenyClust: an R package for
                                  Progeny Clustering . . . . . . . . . . . 328--338
          Göknur Giner and   
                Gordon K. Smyth   \pkgstatmod: Probability Calculations
                                  for the Inverse Gaussian Distribution    339--351
                 Erik S. Wright   Using \pkgDECIPHER v2.0 to Analyze Big
                                  Biological Sequence Data in R  . . . . . 352--359
               Oliver Keyes and   
                  Bob Rudis and   
                     Jay Jacobs   R Packages to Aid in Handling Web Access
                                  Logs . . . . . . . . . . . . . . . . . . 360--366
                       Jos Feys   Nonparametric Tests for the Interaction
                                  in Two-way Factorial Designs Using R . . 367--378
                  Osman Dag and   
             Ceylan Yozgatligil   \pkgGMDH: an R Package for Short Term
                                  Forecasting via GMDH-Type Neural Network
                                  Algorithms . . . . . . . . . . . . . . . 379--386
            Luke A. Winslow and   
          Scott Chamberlain and   
          Alison P. Appling and   
                 Jordan S. Read   \pkgsbtools: a Package Connecting R to
                                  Cloud-based Data for Collaborative
                                  Online Research  . . . . . . . . . . . . 387--398
                    Joe Rickert   Conference Report: useR! 2016  . . . . . 399--401
                Kurt Hornik and   
                  Achim Zeileis   Changes on CRAN  . . . . . . . . . . . . 402--403
          The Bioconductor Team   News from the Bioconductor Project . . . 404--405
                The R Core Team   Changes in R . . . . . . . . . . . . . . 406--415

The R Journal
Volume 8, Number 2, December, 2016

               Michael Lawrence   Editorial  . . . . . . . . . . . . . . . 4--4
   Nathalie C. Stòer and   
             Sven Ove Samuelsen   \pkgmultipleNCC: Inverse Probability
                                  Weighting of Nested Case-Control Data    5--18
       Christopher M. Moore and   
      Christopher R. Stieha and   
             Ben C. Nolting and   
           Maria K. Cameron and   
                Karen C. Abbott   \pkgQPot: an R Package for Stochastic
                                  Differential Equation Quasi-Potential
                                  Analysis . . . . . . . . . . . . . . . . 19--38
           Marco Antoniotti and   
           Giulio Caravagna and   
               Luca De Sano and   
             Alex Graudenzi and   
            Giancarlo Mauri and   
                 Bud Mishra and   
             Daniele Ramazzotti   Design of the \pkgTRONCO BioConductor
                                  Package for TRanslational ONCOlogy . . . 39--59
          Miguel R. Guevara and   
           Dominik Hartmann and   
                Marcelo Mendoza   \pkgdiverse: an R Package to Analyze
                                  Diversity in Complex Systems . . . . . . 60--78
              Anestis Touloumis   Simulating Correlated Binary and
                                  Multinomial Responses under Marginal
                                  Model Specification: The
                                  \pkgSimCorMultRes Package  . . . . . . . 79--91
          Loren Collingwood and   
             Kassra Oskooii and   
         Sergio Garcia-Rios and   
                   Matt Barreto   \pkgeiCompare: Comparing Ecological
                                  Inference Estimates across EI and EI:RC  92--101
             Claudia Vitolo and   
                Matthew Fry and   
                Wouter Buytaert   \pkgrnrfa: an R package to Retrieve,
                                  Filter and Visualize Data from the UK
                                  National River Flow Archive  . . . . . . 102--116
                   Marco Geraci   \pkgQtools: a Collection of Models and
                                  Tools for Quantile Inference . . . . . . 117--138
               Silvia Bacci and   
           Francesco Bartolucci   Two-Tier Latent Class IRT Models in R    139--166
           Rosaria Lombardo and   
                    Eric J. Beh   Variants of Simple Correspondence
                                  Analysis . . . . . . . . . . . . . . . . 167--184
        Victor Chernozhukov and   
               Chris Hansen and   
                Martin Spindler   \pkghdm: High-Dimensional Metrics  . . . 185--199
                 Derek S. Young   Normal Tolerance Interval Procedures in
                                  the \pkgtolerance Package  . . . . . . . 200--212
            Dincer Goksuluk and   
             Selcuk Korkmaz and   
            Gokmen Zararsiz and   
           A. Ergun Karaagaoglu   \pkgeasyROC: an Interactive Web-tool for
                                  ROC Curve Analysis Using R Language
                                  Environment  . . . . . . . . . . . . . . 213--230
                    Kyle Walker   \pkgtigris: an R Package to Access and
                                  Work with Geographic Data from the US
                                  Census Bureau  . . . . . . . . . . . . . 231--242
           Barret Schloerke and   
             Hadley Wickham and   
                Dianne Cook and   
                  Heike Hofmann   Escape from Boxland  . . . . . . . . . . 243--257
Wanbitching E. Wansouwé and   
       Sobom M. Somé and   
  Célestin C. Kokonendji   \pkgAke: an R Package for Discrete and
                                  Continuous Associated Kernel Estimations 258--276
           Michael C. Sachs and   
                Erin E. Gabriel   An Introduction to Principal Surrogate
                                  Evaluation with the pseval Package . . . 277--292
                Paul Deveau and   
          Emmanuel Barillot and   
            Valentina Boeva and   
            Andrei Zinovyev and   
                    Eric Bonnet   Calculating Biological Module Enrichment
                                  or Depletion and Visualizing Data on
                                  Large-scale Molecular Maps with
                                  ACSNMineR and RNaviCell Packages . . . . 293--306
Ángel M. García and   
           Francisco Charte and   
      Pedro González and   
Cristóbal J. Carmona and   
      María J. del Jesus   Subgroup Discovery with Evolutionary
                                  Fuzzy Systems in R: The SDEFSR Package   307--323
            Maria Pitsillou and   
          Konstantinos Fokianos   \pkgdCovTS: Distance
                                  Covariance/Correlation for Time Series   324--340
               Marcel Schweiker   \pkgcomf: an R Package for Thermal
                                  Comfort Studies  . . . . . . . . . . . . 341--351
  Guillermo Federico Olmedo and   
Samuel Ortega-Farías and   
Daniel de la Fuente-Sáiz and   
       David Fonseca- Luego and   
Fernando Fuentes-Peñailillo   \pkgwater: Tools and Functions to
                                  Estimate Actual Evapotranspiration Using
                                  Land Surface Energy Balance Models in R  352--369
            Michael Lipsitz and   
          Alexandre Belloni and   
        Victor Chernozhukov and   
Iván Fernández-Val   \pkgquantreg.nonpar: an R Package for
                                  Performing Nonparametric Series Quantile
                                  Regression . . . . . . . . . . . . . . . 370--381
                Sven Koitka and   
         Christoph M. Friedrich   \pkgnmfgpu4R: GPU-Accelerated
                                  Computation of the Non-Negative Matrix
                                  Factorization (NMF) Using CUDA Capable
                                  Hardware . . . . . . . . . . . . . . . . 382--392
                 Patrick Roocks   Computing Pareto Frontiers and Database
                                  Preferences with the rPref Package . . . 393--404
               Nuno Fachada and   
      João Rodrigues and   
             Vitor V. Lopes and   
             Rui C. Martins and   
              Agostinho C. Rosa   \pkgmicompr: an R Package for
                                  Multivariate Independent Comparison of
                                  Observations . . . . . . . . . . . . . . 405--420
              Xiang-Wei Zhu and   
                   Jian-Yi Chen   \pkgmixtox: an R Package for Mixture
                                  Toxicity Assessment  . . . . . . . . . . 421--433
            Itziar Irigoien and   
           Francesc Mestres and   
              Concepcion Arenas   Weighted Distance Based Discriminant
                                  Analysis: The R Package \pkgWeDiBaDis    434--450
                  Usue Mori and   
        Alexander Mendiburu and   
                 Jose A. Lozano   Distance Measures for Time Series in R:
                                  The TSdist Package . . . . . . . . . . . 451--459
         Luis Meira-Machado and   
                  Marta Sestelo   \pkgcondSURV: an R Package for the
                                  Estimation of the Conditional Survival
                                  Function for Ordered Multivariate
                                  Failure Time Data  . . . . . . . . . . . 460--473
                  Yuan Tang and   
          Masaaki Horikoshi and   
                     Wenxuan Li   \pkgggfortify: Unified Interface to
                                  Visualize Statistical Results of Popular
                                  R Packages . . . . . . . . . . . . . . . 474--485
              Edzer Pebesma and   
             Thomas Mailund and   
                  James Hiebert   Measurement Units in R . . . . . . . . . 486--494
        Muhammad Imdadullah and   
             Muhammad Aslam and   
                    Saima Altaf   \pkgmctest: an R Package for Detection
                                  of Collinearity among Regressors . . . . 495--505
                Torsten Hothorn   R Foundation News  . . . . . . . . . . . 506--506
                Kurt Hornik and   
                  Achim Zeileis   Changes on CRAN  . . . . . . . . . . . . 507--509
     The Bioconductor Core Team   News from the Bioconductor Project . . . 510--510
                The R Core Team   Changes in R . . . . . . . . . . . . . . 511--514


The R Journal
Volume 9, Number 1, June, 2017

                   Roger Bivand   Editorial  . . . . . . . . . . . . . . . 4--5
              Taylor Arnold and   
            Michael J. Kane and   
                  Simon Urbanek   \pkgiotools: High-Performance I/O Tools
                                  for R  . . . . . . . . . . . . . . . . . 6--13
               Martin Otava and   
          Rudradev Sengupta and   
                 Ziv Shkedy and   
                    Dan Lin and   
              Setia Pramana and   
             Tobias Verbeke and   
        Philippe Haldermans and   
          Ludwig A. Hothorn and   
             Daniel Gerhard and   
          Rebecca M. Kuiper and   
      Florian Klinglmueller and   
                  Adetayo Kasim   \pkgIsoGeneGUI: Multiple Approaches for
                                  Dose-Response Analysis of Microarray
                                  Data Using R . . . . . . . . . . . . . . 14--26
                  Sam Tyner and   
    François Briatte and   
                  Heike Hofmann   Network Visualization with \pkgggplot2   27--59
                Mark Pickup and   
             Paul Gustafson and   
             Davor Cubranic and   
                 Geoffrey Evans   \pkgOrthoPanels: an R Package for
                                  Estimating a Dynamic Panel Model with
                                  Fixed Effects Using the Orthogonal
                                  Reparameterization Approach  . . . . . . 60--76
              Randall Pruim and   
           Daniel T. Kaplan and   
             Nicholas J. Horton   The \pkgmosaic Package: Helping Students
                                  to Think with Data Using R . . . . . . . 77--102
                   Jakob Bossek   \pkgsmoof: Single- and Multi-Objective
                                  Optimization Test Functions  . . . . . . 103--113
              Daniel Osorio and   
    Janneth González and   
    Andrés Pinzón   \pkgminval: an R package for MINimal
                                  VALidation of Stoichiometric Reactions   114--123
         G. Brooke Anderson and   
                Colin Eason and   
            Elizabeth A. Barnes   Working with Daily Climate Model Output
                                  Data in R and the \pkgfutureheatwaves
                                  Package  . . . . . . . . . . . . . . . . 124--137
             Sean S. Downey and   
                 Guowei Sun and   
                 Peter Norquest   \pkgalineR: an R Package for Optimizing
                                  Feature-Weighted Alignments and
                                  Linguistic Distances . . . . . . . . . . 138--152
                     Jim Duggan   Implementing a Metapopulation Bass
                                  Diffusion Model using the R Package
                                  \pkgdeSolve  . . . . . . . . . . . . . . 153--163
      Christian Margreitter and   
              Chris Oostenbrink   \pkgMDplot: Visualise Molecular Dynamics 164--186
                   Luca Scrucca   On Some Extensions to \pkgGA Package:
                                  Hybrid Optimisation, Parallelisation and
                                  Islands Evolution  . . . . . . . . . . . 187--206
             Steffen Moritz and   
        Thomas Bartz-Beielstein   \pkgimputeTS: Time Series Missing Value
                                  Imputation in R  . . . . . . . . . . . . 207--218
              Pablo Morales and   
       Julián Luengo and   
   Luís P. F. Garcia and   
              Ana C. Lorena and   
André C. P. L. F. de Carvalho and   
              Francisco Herrera   The \pkgNoiseFiltersR Package: Label
                                  Noise Preprocessing in R . . . . . . . . 219--228
                Razieh Nabi and   
                    Xiaogang Su   \pkgcoxphMIC: an R Package for Sparse
                                  Estimation of Cox Proportional Hazards
                                  Models via Approximated Information
                                  Criteria . . . . . . . . . . . . . . . . 229--238
       Simon H. Heisterkamp and   
   Engelbertus van Willigen and   
  Paul-Matthias Diderichsen and   
                  John Maringwa   Update of the \pkgnlme Package to Allow
                                  a Fixed Standard Deviation of the
                                  Residual Error . . . . . . . . . . . . . 239--251
               Hye-Min Choe and   
                Mijeong Kim and   
                  Eun-Kyung Lee   \pkgEMSaov: an R Package for the
                                  Analysis of Variance with the Expected
                                  Mean Squares and its Shiny Application   252--261
Mónica López-Ratón and   
Elisa M. Molanes-López and   
        Emilio Letón and   
   Carmen Cadarso-Suárez   \pkgGsymPoint: an R Package to Estimate
                                  the Generalized Symmetry Point, an
                                  Optimal Cut-off Point for Binary
                                  Classification in Continuous Diagnostic
                                  Tests  . . . . . . . . . . . . . . . . . 262--283
               Joshua P. French   \pkgautoimage: Multiple Heat Maps for
                                  Projected Coordinates  . . . . . . . . . 284--297
                 Thomas Wieland   Market Area Analysis for Retail and
                                  Service Locations with MCI . . . . . . . 298--323
               Neeraj Bokde and   
Gualberto Asencio-Cortés and   
Francisco Martínez-Álvarez and   
                  Kishore Kulat   \pkgPSF: Introduction to R Package for
                                  Pattern Sequence Based Forecasting
                                  Algorithm  . . . . . . . . . . . . . . . 324--333
             Adrien Mazoyer and   
      Rémy Drouilhet and   
Stéphane Despréaux and   
                  Bernard Ycart   \pkgflan: an R Package for Inference on
                                  Mutation Models  . . . . . . . . . . . . 334--351
             Philipp Probst and   
                    Quay Au and   
       Giuseppe Casalicchio and   
             Clemens Stachl and   
                   Bernd Bischl   Multilabel Classification with R Package
                                  \pkgmlr  . . . . . . . . . . . . . . . . 352--369
                Mingli Chen and   
        Victor Chernozhukov and   
Iván Fernández-Val and   
                   Blaise Melly   \pkgCounterfactual: an R Package for
                                  Counterfactual Analysis  . . . . . . . . 370--384
                  Leo Lahti and   
              Janne Huovari and   
               Markus Kainu and   
             Przemys\law Biecek   Retrieval and Analysis of Eurostat Open
                                  Data with the \pkgeurostat Package . . . 385--392
                   Gul Inan and   
                       Lan Wang   \pkgPGEE: an R Package for Analysis of
                                  Longitudinal Data with High-Dimensional
                                  Covariates . . . . . . . . . . . . . . . 393--402
   Panagiotis Papastamoulis and   
                 Magnus Rattray   \pkgBayesBinMix: an R Package for Model
                                  Based Clustering of Multivariate Binary
                                  Data . . . . . . . . . . . . . . . . . . 403--420
           Brandon M. Greenwell   \pkgpdp: an R Package for Constructing
                                  Partial Dependence Plots . . . . . . . . 421--436
                    Michel Lang   \pkgcheckmate: Fast Argument Checks for
                                  Defensive R Programming  . . . . . . . . 437--445
             Ping-Yang Chen and   
           Ching-Chuan Chen and   
              Chun-Hao Yang and   
            Sheng-Mao Chang and   
                   Kuo-Jung Lee   \pkgmilr: Multiple-Instance Logistic
                                  Regression with Lasso Penalty  . . . . . 446--457
                 Axel Gandy and   
        Jan Terje Kvalòy   \pkgspcadjust: an R Package for
                                  Adjusting for Estimation Error in
                                  Control Charts . . . . . . . . . . . . . 458--476
          Rense Nieuwenhuis and   
      Manfred te Grotenhuis and   
                     Ben Pelzer   Weighted Effect Coding for Observational
                                  Data with \pkgwec  . . . . . . . . . . . 477--485
         G. Brooke Anderson and   
              Dirk Eddelbuettel   Hosting Data Packages via \pkgdrat: a
                                  Case Study with Hurricane Exposure Data  486--497
                Torsten Hothorn   R Foundation News  . . . . . . . . . . . 498--500
        Maciej Ber\kesewicz and   
             Adolfo Alvarez and   
         Przemys\law Biecek and   
         Marcin K. Dyderski and   
            Marcin Kosinski and   
              Jakub Nowosad and   
               Kamil Rotter and   
Alicja Szabelska-Ber\kesewicz and   
          Marcin Szymkowiak and   
          \Lukasz Wawrowski and   
         Joanna Zyprych-Walczak   Conference Report: European R Users
                                  Meeting 2016 . . . . . . . . . . . . . . 501--504
                Kurt Hornik and   
                 Uwe Ligges and   
                  Achim Zeileis   Changes on CRAN  . . . . . . . . . . . . 505--507
         Bioconductor Core Team   News from the Bioconductor Project . . . 508--508
                The R Core Team   Changes in R . . . . . . . . . . . . . . 509--521

The R Journal
Volume 9, Number 2, December, 2017

                   Roger Bivand   Editorial  . . . . . . . . . . . . . . . 4--5
              Heather Savoy and   
            Falk Heße and   
                    Yoram Rubin   \pkganchoredDistr: a Package for the
                                  Bayesian Inversion of Geostatistical
                                  Parameters with Multi-type and
                                  Multi-scale Data . . . . . . . . . . . . 6--17
      Nicolae Teodor Melita and   
                  Stefan Holban   \pkgdGAselID: an R Package for Selecting
                                  a Variable Number of Features in High
                                  Dimensional Data . . . . . . . . . . . . 18--34
Nathan Medina-Rodríguez and   
          Ángelo Santana   Allele Imputation and Haplotype
                                  Determination from Databases Composed of
                                  Nuclear Families . . . . . . . . . . . . 35--55
            Patrick Breheny and   
               Woodrow Burchett   Visualization of Regression Models Using
                                  \pkgvisreg . . . . . . . . . . . . . . . 56--71
    Guillermo Basulto-Elias and   
          Alicia Carriquiry and   
          Kris De Brabanter and   
              Daniel J. Nordman   \pkgfourierin: an R package to compute
                                  Fourier integrals  . . . . . . . . . . . 72--83
      Giorgio Alfredo Spedicato   Discrete Time Markov Chains with R . . . 84--104
             Melanie Prague and   
                   Rui Wang and   
             Victor De Gruttola   \pkgCRTgeeDR: an R Package for Doubly
                                  Robust Generalized Estimating Equations
                                  Estimations in Cluster Randomized Trials
                                  with Missing Data  . . . . . . . . . . . 105--115
Pedro Cañadilla Jiménez and   
   Yolanda Román Montoya   \pkgqueueing: a Package For Analysis of
                                  Queueing Networks and Models in R  . . . 116--126
                Marius Pfeuffer   \pkgctmcd: an R Package for Estimating
                                  the Parameters of a Continuous-Time
                                  Markov Chain from Discrete-Time Data . . 127--141
           Tyson S. Barrett and   
                 Emily Brignone   Furniture for Quantitative Scientists    142--148
            Nicholas Syring and   
                        Meng Li   \pkgBayesBD: an R Package for Bayesian
                                  Inference on Image Boundaries  . . . . . 149--162
                Michael Hahsler   \pkgarulesViz: Interactive Visualization
                                  of Association Rules with R  . . . . . . 163--175
                  Xuwen Zhu and   
             Volodymyr Melnykov   \pkgManlyMix: an R Package for Manly
                                  Mixture Modeling . . . . . . . . . . . . 176--197
 Aurélie Siberchicot and   
  Alice Julien-Laferri\`ere and   
Anne-Béatrice Dufour and   
            Jean Thioulouse and   
           Stéphane Dray   \pkgadegraphics: an S4 Lattice-Based
                                  Package for the Representation of
                                  Multivariate Data  . . . . . . . . . . . 198--212
                  Chao Wang and   
                  Kung-Sik Chan   \pkgcarx: an R Package to Estimate
                                  Censored Autoregressive Time Series with
                                  Exogenous Covariates . . . . . . . . . . 213--231
        Muhammad Imdadullah and   
             Muhammad Aslam and   
                    Saima Altaf   \pkgliureg: a Comprehensive R Package
                                  for the Liu Estimation of Linear
                                  Regression Model with Collinear
                                  Regressors . . . . . . . . . . . . . . . 232--247
                  Taylor Arnold   A Tidy Data Model for Natural Language
                                  Processing using \pkgcleanNLP  . . . . . 248--267
           Josmar Mazucheli and   
André Felipe B. Menezes and   
             Saralees Nadarajah   \pkgmle.tools: an R Package for Maximum
                                  Likelihood Bias Correction . . . . . . . 268--290
      Rafael Benítez and   
    Vicente J. Bolós and   
  José-Luis Toca-Herrera   \pkgafmToolkit: an R Package for
                                  Automated AFM Force-Distance Curves
                                  Analysis . . . . . . . . . . . . . . . . 291--308
            Pablo J. Villacorta   The welchADF Package for Robust
                                  Hypothesis Testing in Unbalanced
                                  Multivariate Mixed Models with
                                  Heteroscedastic and Non-normal Data  . . 309--328
                  Hideitsu Hino   \pkgider: Intrinsic Dimension Estimation
                                  with R . . . . . . . . . . . . . . . . . 329--341
            Annabel Allison and   
               Ian R. White and   
                     Simon Bond   \pkgrpsftm: an R Package for Rank
                                  Preserving Structural Failure Time
                                  Models . . . . . . . . . . . . . . . . . 342--353
        Robert J. Gutierrez and   
         Bradley C. Boehmke and   
           Kenneth W. Bauer and   
               Cade M. Saie and   
                 Trevor J. Bihl   \pkganomalyDetection: Implementation of
                                  Augmented Network Log Anomaly Detection
                                  Procedures . . . . . . . . . . . . . . . 354--365
                Ruby Sharma and   
                Sajal Kumar and   
                  Hua Zhong and   
                  Mingzhou Song   Simulating Noisy, Nonparametric, and
                                  Multivariate Discrete Patterns . . . . . 366--377
           Mollie E. Brooks and   
          Kasper Kristensen and   
        Koen J. van Benthem and   
             Arni Magnusson and   
             Casper W. Berg and   
             Anders Nielsen and   
              Hans J. Skaug and   
        Martin Mächler and   
             Benjamin M. Bolker   \pkgglmmTMB Balances Speed and
                                  Flexibility Among Packages for
                                  Zero-inflated Generalized Linear Mixed
                                  Modeling . . . . . . . . . . . . . . . . 378--400
        Christopher Gandrud and   
              Laron K. Williams   Simulating Probabilistic Long-Term
                                  Effects in Models with Temporal
                                  Dependence . . . . . . . . . . . . . . . 401--408
            Jannes Muenchow and   
            Patrick Schratz and   
             Alexander Brenning   \pkgRQGIS: Integrating R with QGIS for
                                  Statistical Geocomputing . . . . . . . . 409--428
             Robin K. S. Hankin   Partial Rank Data with the hyper2
                                  Package: Likelihood Functions for
                                  Generalized Bradley--Terry Models  . . . 429--439
               Brice Ozenne and   
Anne Lyngholm Sòrensen and   
             Thomas Scheike and   
    Christian Torp-Pedersen and   
         Thomas Alexander Gerds   \pkgriskRegression: Predicting the Risk
                                  of an Event using Cox Regression Models  440--460
       Mirta Ben\vsic\acute and   
                Petar Taler and   
      Safet Hamedovic\acute and   
      Emmanuel Karlo Nyarko and   
                  Kristian Sabo   \pkgLeArEst: Length and Area Estimation
                                  from Data Measured with Additive Error   461--473
              Andreas Beger and   
        Daniel W. Hill, Jr. and   
        Nils. W. Metternich and   
            Shahryar Minhas and   
                Michael D. Ward   Splitting It Up: The \pkgspduration
                                  Split-Population Duration Regression
                                  Package for Time-Varying Covariates  . . 474--486
      Clifford Anderson-Bergman   \pkgBayesian Regression Models for
                                  Interval-censored Data in R  . . . . . . 487--498
              Travis Canida and   
                     John Ihrie   \pkgopenEBGM: an R Implementation of the
                                  Gamma-Poisson Shrinker Data Mining Model 499--519
                David J. Winter   \pkgrentrez: an R package for the NCBI
                                  eUtils API . . . . . . . . . . . . . . . 520--526
             Carl Boettiger and   
              Dirk Eddelbuettel   An Introduction to Rocker: Docker
                                  Containers for R . . . . . . . . . . . . 527--536
                 Tobias Verbeke   Conference Report: useR!2017 . . . . . . 537--538
            Nicolas Baradel and   
          Christophe Dutang and   
             Caroline Hillairet   Conference Report: R in Insurance 2017   539--540
            Stella Bollmann and   
                Dianne Cook and   
              Jasmine Dumas and   
                   John Fox and   
                Julie Josse and   
               Oliver Keyes and   
             Carolin Strobl and   
             Heather Turner and   
                 Rudolf Debelak   Forwards Column  . . . . . . . . . . . . 541--552
            Matthias Gehrke and   
                 Reed Davis and   
             Norman Matloff and   
              Paul Thompson and   
               Tiffany Chen and   
              Emily Watkins and   
                 Laurel Beckett   R Teaching Column  . . . . . . . . . . . 553--562
                Torsten Hothorn   R Foundation News  . . . . . . . . . . . 563--563
                Kurt Hornik and   
                 Uwe Ligges and   
                  Achim Zeileis   Changes on CRAN  . . . . . . . . . . . . 564--566
         Bioconductor Core Team   News from the Bioconductor Project . . . 567--567
                The R Core Team   Changes in R . . . . . . . . . . . . . . 568--570


The R Journal
Volume 10, Number 1, July, 2018

                   John Verzani   Editorial  . . . . . . . . . . . . . . . 4--5
           Jonathan Gelfond and   
               Martin Goros and   
            Brian Hernandez and   
                     Alex Bokov   A System for an Accountable Data
                                  Analysis Process in R  . . . . . . . . . 6--21
           Jennifer Broatch and   
             Jennifer Green and   
                    Andrew Karl   \pkgRealVAMS: an R Package for Fitting a
                                  Multivariate Value-added Model (VAM) . . 22--30
         Duygu Çelik and   
             Murat Tiniç   \pkgInfoTrad: an R package for
                                  estimating the probability of informed
                                  trading  . . . . . . . . . . . . . . . . 31--42
      Waldemar W. Koczkodaj and   
                    Feng Li and   
         Alicja Wolny--Dominiak   \pkgRatingScaleReduction package:
                                  stepwise rating scale item reduction
                                  without predictability loss  . . . . . . 43--55
               Zachary M. Jones   \pkgmmpf: Monte-Carlo Methods for
                                  Prediction Functions . . . . . . . . . . 56--60
             Daniel Salfran and   
                  Martin Spiess   Generalized Additive Model Multiple
                                  Imputation by Chained Equations With
                                  Package \pkgImputeRobust . . . . . . . . 61--72
                 Juhyun Kim and   
                Yiwen Zhang and   
                 Joshua Day and   
                       Hua Zhou   \pkgMGLM: an R Package for Multivariate
                                  Categorical Data Analysis  . . . . . . . 73--90
            Yuri R. Fonseca and   
          Ricardo P. Masini and   
        Marcelo C. Medeiros and   
      Gabriel F. R. Vasconcelos   \pkgArCo: an R package to Estimate
                                  Artificial Counterfactuals . . . . . . . 91--108
       Cathrine Ulla Jensen and   
              Toke Emil Panduro   \pkgPanJen: an R package for Ranking
                                  Transformations in a Linear Regression   109--121
                M. Iturbide and   
                   J. Bedia and   
         J. M. Gutiérrez   Tackling Uncertainties of Species
                                  Distribution Model Projections with
                                  Package \pkgmopa . . . . . . . . . . . . 122--139
                  Jongho Im and   
                  In Ho Cho and   
                  Jae Kwang Kim   \pkgFHDI: an R Package for Fractional
                                  Hot Deck Imputation  . . . . . . . . . . 140--154
      Gonzalo Garcia-Donato and   
                   Anabel Forte   \pkgBayesian Testing, Variable Selection
                                  and Model Averaging in Linear Models
                                  using R with \pkgBayesVarSel . . . . . . 155--174
                  Osman Dag and   
                Anil Dolgun and   
              Naime Meric Konar   \pkgonewaytests: an R Package for
                                  One-Way Tests in Independent Groups
                                  Designs  . . . . . . . . . . . . . . . . 175--199
      Alejandro Saavedra-Nieves   \pkgInventorymodel: an R Package for
                                  Centralized Inventory Problems . . . . . 200--217
             Marcus W. Beck and   
               Neeraj Bokde and   
Gualberto Asencio-Cortés and   
                  Kishore Kulat   R Package \pkgimputeTestbench to Compare
                                  Imputation Methods for Univariate Time
                                  Series . . . . . . . . . . . . . . . . . 218--233
          Aurore Archimbaud and   
           Klaus Nordhausen and   
                Anne Ruiz-Gazen   \pkgICSOutlier: Unsupervised Outlier
                                  Detection for Low-Dimensional
                                  Contamination Structure  . . . . . . . . 234--250
              David Bucklin and   
                Mathieu Basille   \pkgrpostgis: Linking R with a PostGIS
                                  Spatial Database . . . . . . . . . . . . 251--268
        Enio G. Jelihovschi and   
           Ivan Bezerra Allaman   \pkglba: an R Package for Latent Budget
                                  Analysis . . . . . . . . . . . . . . . . 269--287
            Michael J. Wurm and   
                Paul J. Rathouz   Semiparametric Generalized Linear Models
                                  with the \pkggldrm Package . . . . . . . 288--307
             Andrzej Palczewski   \pkgLP Algorithms for Portfolio
                                  Optimization: The PortfolioOptim Package 308--327
            Angel Berihuete and   
            Carmen D. Ramos and   
                Miguel A. Sordo   Welfare, Inequality and Poverty Analysis
                                  with \pkgrtip: an Approach Based on
                                  Stochastic Dominance . . . . . . . . . . 328--341
              Guido Kraemer and   
          Markus Reichstein and   
              Miguel D. Mahecha   \pkgdimRed and coRanking --- Unifying
                                  Dimensionality Reduction in R  . . . . . 342--358
                   Hui Tang and   
           Elizabeth L. Day and   
          Molly B. Atkinson and   
              Norbert J. Pienta   \pkgGrpString: an R Package for Analysis
                                  of Groups of Strings . . . . . . . . . . 359--369
              Bilge Bas\cer and   
                  Nalan Cinemre   Epistemic Game Theory: Putting
                                  Algorithms to Work . . . . . . . . . . . 370--380
       Brandon M. Greenwell and   
         Andrew J. McCarthy and   
         Bradley C. Boehmke and   
                    Dungang Liu   Residuals and Diagnostics for Binary and
                                  Ordinal Regression Models: an
                                  Introduction to the \pkgsure Package . . 381--394
    Paul-Christian Bürkner   Advanced Bayesian Multilevel Modeling
                                  with the R Package brms  . . . . . . . . 395--411
Césaire J. K. Fouodo and   
         Inke R. König and   
                Claus Weihs and   
            Andreas Ziegler and   
               Marvin N. Wright   Support Vector Machines for Survival
                                  Analysis with R  . . . . . . . . . . . . 412--423
                Barak Brill and   
                Yair Heller and   
                    Ruth Heller   Nonparametric Independence Tests and
                                  k-sample Tests for Large Sample Sizes
                                  Using Package \pkgHHG  . . . . . . . . . 424--438
                  Edzer Pebesma   Simple Features for R: Standardized
                                  Support for Spatial Vector Data  . . . . 439--446
Stéphane Blondeau Da Silva and   
                  Anne Da Silva   \pkgPstat: an R Package to Assess
                                  Population Differentiation in Phenotypic
                                  Traits . . . . . . . . . . . . . . . . . 447--454
                  Timothy Barry   Collections in R: Review and Proposal    455--471
                Boxiang Liu and   
             Thomas Quertermous   Approximating the Sum of Independent
                                  Non-Identical Binomial Random Variables  472--483
                   Edmund Jones   \pkgcchs: an R Package for Stratified
                                  Case-Cohort Studies  . . . . . . . . . . 484--494
                   Paula Moraga   Small Area Disease Risk Estimation and
                                  Visualization Using R  . . . . . . . . . 495--506
           Ioana-Elena Oana and   
           Carsten Q. Schneider   \pkgSetMethods: an Add-on R Package for
                                  Advanced QCA . . . . . . . . . . . . . . 507--533
                Martin Happ and   
          Solomon W. Harrar and   
                 Arne C. Bathke   \pkgHRM: an R Package for Analysing
                                  High-dimensional Multi-factor Repeated
                                  Measures . . . . . . . . . . . . . . . . 534--548
         Gergely Daróczi   Conference Report: eRum 2018 . . . . . . 549--550
          Fernando P. Mayer and   
          Walmes M. Zeviani and   
            Wagner H. Bonat and   
          Elias T. Krainski and   
          Paulo J. Ribeiro, Jr.   R Day report . . . . . . . . . . . . . . 551--554
                Torsten Hothorn   R Foundation News  . . . . . . . . . . . 555--555
                Kurt Hornik and   
                 Uwe Ligges and   
                  Achim Zeileis   Changes on CRAN  . . . . . . . . . . . . 556--559
         Bioconductor Core Team   News from the Bioconductor Project . . . 560--560
                The R Core Team   Changes in R . . . . . . . . . . . . . . 561--570

The R Journal
Volume 10, Number 2, December, 2018

                   John Verzani   Editorial  . . . . . . . . . . . . . . . 4--6
             Robin Lovelace and   
                Richard Ellison   \pkgstplanr: a Package for Transport
                                  Planning . . . . . . . . . . . . . . . . 7--23
            Adriano Rivolli and   
  Andre C. P. L. F. de Carvalho   The \pkgutiml Package: Multi-label
                                  Classification in R  . . . . . . . . . . 24--37
                  Juri Hinz and   
                     Jeremy Yee   \pkgrcss: R package for optimal convex
                                  stochastic switching . . . . . . . . . . 38--54
Sonia Pérez-Fernández and   
Pablo Martínez-Camblor and   
            Peter Filzmoser and   
                Norberto Corral   \pkgnsROC: an R package for Non-Standard
                                  ROC Curve Analysis . . . . . . . . . . . 55--74
Renata Tiene de Carvalho Yokota and   
        Caspar W. N. Looman and   
    Wilma Johanna Nusselder and   
            Herman Van Oyen and   
              Geert Molenberghs   \pkgaddhaz: Contribution of Chronic
                                  Diseases to the Disability Burden Using
                                  R  . . . . . . . . . . . . . . . . . . . 75--94
                Yuzhou Chen and   
               Yulia R. Gel and   
       Vyacheslav Lyubchich and   
                 Kusha Nezafati   \pkgSnowboot: Bootstrap Methods for
                                  Network Inference  . . . . . . . . . . . 95--113
       Samantha Duchscherer and   
             Robert Stewart and   
                    Marie Urban   \pkgrevengc: an R package to Reverse
                                  Engineer Summarized Data . . . . . . . . 114--123
                   Jae Keun Yoo   Basis-Adaptive Selection Algorithm in
                                  \pkgdr-package . . . . . . . . . . . . . 124--132
        Talitha F. Speranza and   
          Pedro C. Ferreira and   
            Jonatha A. da Costa   \pkgSARIMA Analysis and Automated Model
                                  Reports with \pkgBETS, an R Package  . . 133--147
             Jari Miettinen and   
           Klaus Nordhausen and   
                  Sara Taskinen   \pkgfICA: FastICA Algorithms and Their
                                  Improved Variants  . . . . . . . . . . . 148--158
                 Yanming Li and   
        Brenda W. Gillespie and   
              Kerby Shedden and   
              John A. Gillespie   Profile Likelihood Estimation of the
                                  Correlation Coefficient in the Presence
                                  of Left, Right or Interval Censoring and
                                  Missing Data . . . . . . . . . . . . . . 159--179
              Kasia Sawicka and   
     Gerard B. M. Heuvelink and   
          Dennis J. J. Walvoort   Spatial Uncertainty Propagation Analysis
                                  with the \pkgspup R Package  . . . . . . 180--199
                 Gero Szepannek   \pkgclustMixType: User-Friendly
                                  Clustering of Mixed-Type Data in R . . . 200--208
                Roman Olson and   
          Kelsey L. Ruckert and   
                  Won Chang and   
               Klaus Keller and   
               Murali Haran and   
                     Soon-Il An   \pkgStilt: Easy Emulation of Time Series
                                  AR(1) Computer Model Output in
                                  Multidimensional Parameter Space . . . . 209--225
          Vlad Stefan Barbu and   
     Caroline Bérard and   
          Dominique Cellier and   
         Mathilde Sautreuil and   
                 Nicolas Vergne   \pkgSMM: an R Package for Estimation and
                                  Simulation of Discrete-time semi-Markov
                                  Models . . . . . . . . . . . . . . . . . 226--247
          Alexandre Almeida and   
                   Adam Loy and   
                  Heike Hofmann   \pkgggplot2 Compatible Quantile-Quantile
                                  Plots in R . . . . . . . . . . . . . . . 248--261
         Christoph E. Weiss and   
                 Eran Raviv and   
                 Gernot Roetzer   Forecast Combinations in R using the
                                  \pkgForecastComb Package . . . . . . . . 262--281
   Jeffrey C. Miecznikowski and   
                En-shuo Hsu and   
                Yanhua Chen and   
                  Albert Vexler   \pkgtestforDEP: an R Package for Modern
                                  Distribution-free Tests and
                                  Visualization Tools for Independence . . 282--294
             Joshua Lambert and   
                  Liyu Gong and   
         Corrine F. Elliott and   
         Katherine Thompson and   
               Arnold Stromberg   \pkgrFSA: an R Package for Finding Best
                                  Subsets and Interactions . . . . . . . . 295--308
                 John Mount and   
                     Nina Zumel   \pkgDot-Pipe: an S3 Extensible Pipe for
                                  R  . . . . . . . . . . . . . . . . . . . 309--316
              Leyla Azarang and   
     Manuel Oviedo de la Fuente   \pkgidmTPreg: Regression Model for
                                  Progressive Illness Death Data . . . . . 317--325
       Muhammad Imdad Ullah and   
             Muhammad Aslam and   
                    Saima Altaf   \pkglmridge: a Comprehensive R Package
                                  for Ridge Regression . . . . . . . . . . 326--346
        Paul F. Evangelista and   
                   David Beskow   Geospatial Point Density . . . . . . . . 347--356
                    Adrian Dusa   Consistency Cubes: a fast, efficient
                                  method for exact Boolean minimization    357--370
                    Adam Rahman   \pkgsdpt3r: Semidefinite Quadratic
                                  Linear Programming in R  . . . . . . . . 371--394
            Mateusz Staniak and   
             Przemys\law Biecek   Explanations of Model Predictions with
                                  \pkglive and \pkgbreakDown Packages  . . 395--409
                David Ardia and   
                 Kris Boudt and   
               Leopoldo Catania   Downside Risk Evaluation with the R
                                  Package \pkgGAS  . . . . . . . . . . . . 410--421
       Alexander P. Christensen   \pkgNetworkToolbox: Methods and Measures
                                  for Brain, Cognitive, and Psychometric
                                  Network Analysis in R  . . . . . . . . . 422--439
           Floid R. Gilbert and   
                  David B. Dahl   \pkgjsr223: a Java Platform Integration
                                  for R with Programming Languages Groovy,
                                  JavaScript, JRuby, Jython, and Kotlin    440--454
     Bojan Mihaljevic\acute and   
              Concha Bielza and   
         Pedro Larrañaga   \pkgbnclassify: Learning Bayesian
                                  Network Classifiers  . . . . . . . . . . 455--468
               Soren Jordan and   
              Andrew Q. Philips   Dynamic Simulation and Testing for
                                  Single-Equation Cointegrating and
                                  Stationary Autoregressive Distributed
                                  Lag Models . . . . . . . . . . . . . . . 469--488
            Michael Yeomans and   
           Alejandro Kantor and   
                 Dustin Tingley   The politeness Package: Detecting
                                  Politeness in Natural Language . . . . . 489--502
Patrícia Martinková and   
  Adéla Drabinová   \pkgShinyItemAnalysis for Teaching
                                  Psychometrics and to Enforce Routine
                                  Analysis of Educational Tests  . . . . . 503--515
              Travers Ching and   
              Dirk Eddelbuettel   \pkgRcppMsgPack: MessagePack Headers and
                                  Interface Functions for R  . . . . . . . 516--525
          Georgios Papageorgiou   \pkgBNSP: an R Package for Fitting
                                  Bayesian Semiparametric Regression
                                  Models and Variable Selection  . . . . . 526--548
          Iñaki Ucar and   
              Edzer Pebesma and   
                 Arturo Azcorra   Measurement Errors in R  . . . . . . . . 549--557
                Julia Silge and   
               John C. Nash and   
                 Spencer Graves   Navigating the R Package Universe  . . . 558--563
                Laura Acion and   
           Natalia da Silva and   
                   Riva Quiroga   Conference Report: LatinR 2018 . . . . . 564--566
                 Ariel Levy and   
      Luciane F. Alcoforado and   
            Orlando Celso Longo   Conference Report: SER III . . . . . . . 567--571
       Micha\l Burdukiewicz and   
                Marta Karas and   
         Leon Eyrich Jessen and   
     Marcin Kosin\acute ski and   
               Bernd Bischl and   
            Stefan Rödiger   Conference Report: Why R? 2018 . . . . . 572--578
                 Joseph Rickert   Conference Report: R / Pharma 2018 . . . 579--580
             Joseph Rickert and   
      Naras Balasubramanian and   
                   Michael Kane   Conference Report: R / Medicine Report   581--582
                Torsten Hothorn   R Foundation News  . . . . . . . . . . . 583--583
                Kurt Hornik and   
                 Uwe Ligges and   
                  Achim Zeileis   Changes on CRAN  . . . . . . . . . . . . 584--586
         Bioconductor Core Team   News from the Bioconductor Project . . . 587--587
                The R Core Team   Changes in R . . . . . . . . . . . . . . 588--590


The R Journal
Volume 11, Number 1, June, 2019

                   Norm Matloff   Editorial  . . . . . . . . . . . . . . . 4--6
             Massimo Cannas and   
                   Bruno Arpino   Matching with Clustered Data: the
                                  \pkgCMatching Package in R . . . . . . . 7--21
   Alexis Sardá-Espinosa   Time-Series Clustering in R Using the
                                  \pkgdtwclust Package . . . . . . . . . . 22--43
             Charlotte Dion and   
             Simone Hermann and   
                 Adeline Samson   \pkgmixedsde: a Package to Fit Mixed
                                  Stochastic Differential Equations  . . . 44--66
             Emilio Sansano and   
       Raúl Montoliu and   
      Óscar Belmonte and   
 Joaquín Torres-Sospedra   Indoor Positioning and Fingerprinting:
                                  The R Package \pkgipft . . . . . . . . . 67--90
                      Lu Ou and   
          Michael D. Hunter and   
                   Sy-Miin Chow   Whats for dynr: a Package for Linear and
                                  Nonlinear Dynamic Modeling in R  . . . . 91--111
                Mengyang Gu and   
               Jesus Palomo and   
                James O. Berger   \pkgRobustGaSP: Robust Gaussian
                                  Stochastic Process Emulation in R  . . . 112--136
             Armin Ströbel   \pkgatable: Create Tables for Clinical
                                  Trial Reports  . . . . . . . . . . . . . 137--148
            Gianmarco Vacca and   
              Maria Grazia Zoia   Identifying and Testing Recursive vs.
                                  Interdependent Links in Simultaneous
                                  Equation Models via the \pkgSIRE Package 149--169
  Josue M. Polanco-Martinez and   
  Martin A. Medina-Elizalde and   
Maria Fernanda Sanchez Goni and   
               Manfred Mudelsee   \pkgBINCOR: an R package for Estimating
                                  the Correlation between Two Unevenly
                                  Spaced Time Series . . . . . . . . . . . 170--184
              Diego Moretti and   
             Luca Valentino and   
                  Tiziana Tuoto   Optimization Routines for Enforcing
                                  One-to-One Matches in Record Linkage
                                  Problems . . . . . . . . . . . . . . . . 185--197
      Maria Brigida Ferraro and   
             Paolo Giordani and   
               Alessio Serafini   \pkgfclust: an R Package for Fuzzy
                                  Clustering . . . . . . . . . . . . . . . 198--210
         Rados\law Piliszek and   
            Krzysztof Mnich and   
              Szymon Migacz and   
         Pawe\l Tabaszewski and   
           Andrzej Su\lecki and   
         Aneta Polewko-Klim and   
                Witold Rudnicki   \pkgMDFS: MultiDimensional Feature
                                  Selection in R . . . . . . . . . . . . . 198--229
              Serge de Valk and   
           Daiane de Mattos and   
                 Pedro Ferreira   \pkgNowcasting: an R Package for
                                  Predicting Economic Variables Using
                                  Dynamic Factor Models  . . . . . . . . . 230--244
               Michael Kipp and   
                 Ursula Laa and   
                    Dianne Cook   Connecting R with D3 for dynamic
                                  graphics, to explore multivariate data
                                  with tours . . . . . . . . . . . . . . . 245--249
         Allison Fialkowski and   
                  Hemant Tiwari   \pkgSimCorrMix: Simulation of Correlated
                                  Data with Multiple Variable Types
                                  Including Continuous and Count Mixture
                                  Distributions  . . . . . . . . . . . . . 250--286
             Michael Dorman and   
              Evyatar Erell and   
                 Adi Vulkan and   
                     Itai Kloog   \pkgshadow: R Package for Geometric
                                  Shadow Calculations in an Urban
                                  Environment  . . . . . . . . . . . . . . 287--309
               Claudia Cava and   
           Isabella Castiglioni   Integration of networks and pathways
                                  with \pkgStarBioTrek package . . . . . . 310--322
            Rheanna Mainzer and   
                   Paul Kabaila   \pkgciuupi: an R package for Computing
                                  Confidence Intervals that Utilize
                                  Uncertain Prior Information  . . . . . . 323--336
                     Di Shu and   
                    Grace Y. Yi   \pkgipwErrorY: an R Package for
                                  Estimation of Average Treatment Effect
                                  with Misclassified Binary Outcome  . . . 337--351
             Florian Gerber and   
                Reinhard Furrer   \pkgoptimParallel: an R Package
                                  Providing a Parallel Version of the
                                  L-BFGS-B Optimization Method . . . . . . 352--358
             Stuart Baumann and   
               Margaryta Klymak   Fixed Point Acceleration in R  . . . . . 359--375
             Danilo Alvares and   
          Sebastien Haneuse and   
              Catherine Lee and   
                     Kyu Ha Lee   \pkgSemiCompRisks: an R Package for the
                                  Analysis of Independent and
                                  Cluster-correlated Semi-competing Risks
                                  Data . . . . . . . . . . . . . . . . . . 376--400
               Busra Sevinc and   
             Bekir Cetintav and   
               Melek Esemen and   
                   Selma Gurler   \pkgRSSampling: a Pioneering Package for
                                  Ranked Set Sampling  . . . . . . . . . . 401--415
                 Juan Xiong and   
                    Grace Y. Yi   \pkgswgee: an R Package for Analyzing
                                  Longitudinal Data with Response
                                  Missingness and Covariate Measurement
                                  Error  . . . . . . . . . . . . . . . . . 416--426
           Pere J. Ferrando and   
        Urbano Lorenzo-Seva and   
         David Navarro-Gonzalez   \pkgunival: an FA-based R Package For
                                  Assessing Essential Unidimensionality
                                  Using External Validity Information  . . 427--436
                Kurt Hornik and   
                 Uwe Ligges and   
                  Achim Zeileis   Changes on CRAN  . . . . . . . . . . . . 438--440
                The R Core Team   R News . . . . . . . . . . . . . . . . . 442--582
                Torsten Hothorn   R Foundation News  . . . . . . . . . . . 583--583

The R Journal
Volume 11, Number 2, December, 2019

                Michael J. Kane   Editorial  . . . . . . . . . . . . . . . 4--5
               Jan-Philipp Kolb   Using Web Services to Work with Geodata
                                  in R . . . . . . . . . . . . . . . . . . 6--23
                Ruoqing Zhu and   
               Jiyang Zhang and   
                Ruilin Zhao and   
                    Peng Xu and   
               Wenzhuo Zhou and   
                      Xin Zhang   \pkgorthoDr: Semiparametric Dimension
                                  Reduction via Orthogonality Constrained
                                  Optimization . . . . . . . . . . . . . . 24--37
            Jonathan Kropko and   
              Jeffrey J. Harden   \pkgcoxed: an R Package for Computing
                                  Duration-Based Quantities from the Cox
                                  Proportional Hazards Model . . . . . . . 38--45
               Eric J. Ward and   
           Sean C. Anderson and   
            Luis A. Damiano and   
          Mary E. Hunsicker and   
              Michael A. Litzow   Modeling regimes with extremes: the
                                  \pkgbayesdfa package for identifying and
                                  forecasting common trends and anomalies
                                  in multivariate time-series data . . . . 46--55
          Joan del Castillo and   
               Isabel Serra and   
              Maria Padilla and   
            David Moriña   Fitting Tails by the Empirical Residual
                                  Coefficient of Variation: The \pkgercv
                                  Package  . . . . . . . . . . . . . . . . 56--68
               John Reisner and   
                  Hieu Pham and   
          Sigurdur Olafsson and   
           Stephen Vardeman and   
                        Jing Li   \pkgbiclustermd: an R Package for
                                  Biclustering with Missing Values . . . . 69--84
           Alicja Gosiewska and   
             Przemys\law Biecek   \pkgauditor: an R Package for
                                  Model-Agnostic Visual Validation and
                                  Diagnostics  . . . . . . . . . . . . . . 85--98
                Lily Medina and   
     Ann-Kristin Kreutzmann and   
      Natalia Rojas-Perilla and   
                  Piedad Castro   The R Package \pkgtrafo for Transforming
                                  Linear Regression Models . . . . . . . . 99--123
              Wadim Djatschenko   \pkgBondValuation: an R Package for
                                  Fixed Coupon Bond Analysis . . . . . . . 124--141
            Roberto Sichera and   
                 Pietro Pizzuto   \pkgConvergenceClubs: a Package for
                                  Performing the Phillips and Sul's Club
                                  Convergence Clustering Procedure . . . . 142--151
           David P. Hofmeyr and   
              Nicos G. Pavlidis   \pkgPPCI: an R Package for Cluster
                                  Identification using Projection Pursuit  152--170
                  Hyowon An and   
           Justin T. Landis and   
           Aubrey G. Bailey and   
            James S. Marron and   
                Dirk P. Dittmer   \pkgdr4pl: a Stable Convergence
                                  Algorithm for the 4 Parameter Logistic
                                  Model  . . . . . . . . . . . . . . . . . 171--190
                 Hengshi Yu and   
                     Fan Li and   
             John A. Gallis and   
            Elizabeth L. Turner   \pkgcvcrand: a Package for
                                  Covariate-constrained Randomization and
                                  the Clustered Permutation Test for
                                  Cluster Randomized Trials  . . . . . . . 191--204
           Matteo Quartagno and   
                Simon Grund and   
                James Carpenter   \pkgjomo: a Flexible Package for
                                  Two-level Joint Modelling Multiple
                                  Imputation . . . . . . . . . . . . . . . 205--228
  Francisco Martínez and   
María P. Frías and   
           Francisco Charte and   
              Antonio J. Rivera   Time Series Forecasting with KNN in R:
                                  the \pkgtsfknn Package . . . . . . . . . 229--242
                Kasey Jones and   
                   Rob Chew and   
             Allison Witman and   
                      Yiyan Liu   \pkgrollmatch: an R Package for Rolling
                                  Entry Matching . . . . . . . . . . . . . 243--253
            Michael Hahsler and   
                Ian Johnson and   
      Tomá\vs Kliegr and   
          Jaroslav Kuchar\check   Associative Classification in R:
                                  \pkgarc, \pkgarulesCBA, and \pkgrCBA . . 254--290
             Francesca Ieva and   
        Anna Maria Paganoni and   
                  Juan Romo and   
           Nicholas Tarabelloni   \pkgroahd Package: Robust Analysis of
                                  High Dimensional Data  . . . . . . . . . 291--307
              John R. Giles and   
               Henrik Salje and   
                 Justin Lessler   The \pkgIDSpatialStats R Package:
                                  Quantifying Spatial Dependence of
                                  Infectious Disease Spread  . . . . . . . 308--327
             Toby Dylan Hocking   Comparing \pkgnamedCapture with other R
                                  packages for regular expressions . . . . 328--346
            Mateusz Staniak and   
             Przemys\law Biecek   The Landscape of R Packages for
                                  Automated Exploratory Data Analysis  . . 347--369
       Henrique Hoeltgebaum and   
                 Heather Battey   \pkgHCmodelSets: an R Package for
                                  Specifying Sets of Well-fitting Models
                                  in High Dimensions . . . . . . . . . . . 370--379
            Sarah Friedrich and   
          Frank Konietschke and   
                   Markus Pauly   Resampling-Based Analysis of
                                  Multivariate Data and Repeated Measures
                                  Designs with the R Package \pkgMANOVA.RM 380--400
                   Philipp Otto   \pkgspGARCH: an R-Package for Spatial
                                  and Spatiotemporal ARCH and GARCH models 401--420
           Philipp Adämmer   \pkglpirfs: an R Package to Estimate
                                  Impulse Response Functions by Local
                                  Projections  . . . . . . . . . . . . . . 421--438
Marcela Alfaro Córdoba and   
     Frans van Dunné and   
Agustín Gómez Meléndez and   
                Jacob van Etten   Conference: Report ConectaR 2019 . . . . 439--442
                Torsten Hothorn   R Foundation News  . . . . . . . . . . . 443--443
                Kurt Hornik and   
                 Uwe Ligges and   
                  Achim Zeileis   Changes on CRAN  . . . . . . . . . . . . 444--446
         Bioconductor Core Team   News from the Bioconductor Project . . . 447--447
                The R Core Team   R News . . . . . . . . . . . . . . . . . 448--554


The R Journal
Volume 12, Number 1, June, 2020

                Michael J. Kane   Editorial  . . . . . . . . . . . . . . . 4--5
                 Dennis Prangle   \pkggk: an R Package for the $g$-and-$k$
                                  and Generalised $g$-and-$h$
                                  Distributions  . . . . . . . . . . . . . 7--20
              Youssef Hmamouche   \pkgNlinTS: an R Package For Causality
                                  Detection in Time Series . . . . . . . . 21--31
                     Lu Bai and   
           Daniel L. Gillen and   
           Scott M. Bartell and   
      Verónica M. Vieira   Mapping Smoothed Spatial Effect
                                  Estimates from Individual-Level Data:
                                  \pkgMapGAM . . . . . . . . . . . . . . . 32--48
          Spyros E. Balafas and   
             Wim P. Krijnen and   
              Wendy J. Post and   
                   Ernst C. Wit   \pkgmudfold: an R Package for
                                  Nonparametric IRT Modelling of Unfolding
                                  Processes  . . . . . . . . . . . . . . . 49--75
         Francisco Bischoff and   
        Pedro Pereira Rodrigues   \pkgtsmp: an R Package for Time Series
                                  with Matrix Profile  . . . . . . . . . . 76--86
    Vineetha Warriyar K. V. and   
            Waleed Almutiry and   
                    Rob Deardon   Individual-Level Modelling of Infectious
                                  Disease Data: EpiILM . . . . . . . . . . 87--104
               Emily Morris and   
                   Kevin He and   
                 Yanming Li and   
                      Yi Li and   
                      Jian Kang   \pkgSurvBoost: an R Package for
                                  High-Dimensional Variable Selection in
                                  the Stratified Proportional Hazards
                                  Model via Gradient Boosting  . . . . . . 105--117
               Chi Hyun Lee and   
                  Heng Zhou and   
                  Jing Ning and   
               Diane D. Liu and   
                        Yu Shen   \pkgCoxPhLb: an R Package for Analyzing
                                  Length Biased Data under Cox Model . . . 118--130
               Shuowen Chen and   
        Victor Chernozhukov and   
Iván Fernández-Val and   
                         Ye Luo   \pkgSortedEffects: Sorted Causal Effects
                                  in R . . . . . . . . . . . . . . . . . . 131--146
         Bulent Altunkaynak and   
                   Hamza Gamgam   \pkgnpordtests: an R Package of
                                  Nonparametric Tests for Equality of
                                  Location Against Ordered Alternatives    147--171
         Matias D. Cattaneo and   
             Max H. Farrell and   
                   Yingjie Feng   \pkglspartition: Partitioning-Based
                                  Least Squares Regression . . . . . . . . 172--187
          R. Douglas Martin and   
       Chindhanai Uthaisaad and   
                  Daniel Z. Xia   Skew-$t$ Expected Information Matrix
                                  Evaluation and Use for Standard Error
                                  Calculations . . . . . . . . . . . . . . 188--205
               Daniel Fryer and   
                    Ming Li and   
                  Andriy Olenko   \pkgrcosmo: R Package for Analysis of
                                  Spherical, \pkgHEALPix and Cosmological
                                  Data . . . . . . . . . . . . . . . . . . 206--225
    Lucy D'Agostino McGowan and   
                 Sean Kross and   
                   Jeffrey Leek   Tools for Analyzing R Code the Tidy Way  226--242
          Nicholas Spyrison and   
                    Dianne Cook   \pkgspinifex: an R Package for Creating
                                  a Manual Tour of Low-dimensional
                                  Projections of Multivariate Data . . . . 243--257
                 Sean Kross and   
            Jeffrey T. Leek and   
                 John Muschelli   \pkgari: The Automated R Instructor  . . 258--265
                    Tao Sun and   
                      Ying Ding   \pkgCopulaCenR: Copula based Regression
                                  Models for Bivariate Censored Data in R  266--282
              Lukas Sablica and   
                    Kurt Hornik   \pkgmistr: a Computational Framework for
                                  Mixture and Composite Distributions  . . 283--299
 Adéla Hladká and   
Patrícia Martinková   \pkgdifNLR: Generalized Logistic
                                  Regression Models for DIF and DDF
                                  Detection  . . . . . . . . . . . . . . . 300--323
Òystein Sòrensen and   
             Marta Crispino and   
                Qinghua Liu and   
                Valeria Vitelli   \pkgBayesMallows: an R Package for the
                                  Bayesian Mallows Model . . . . . . . . . 324--342
       Brandon M. Greenwell and   
             Bradley C. Boehmke   Variable Importance Plots --- an
                                  Introduction to the \pkgvip Package  . . 343--366
           Maciej Bartoszuk and   
               Marek Gagolewski   \pkgSimilaR: R Code Clone and Plagiarism
                                  Detection  . . . . . . . . . . . . . . . 367--385
               Stepan Mazur and   
               Dmitry Otryakhin   Linear Fractional Stable Motion with the
                                  \pkgrlfsm R Package  . . . . . . . . . . 386--405
                   M. Rueda and   
     R. Ferri-García and   
                      L. Castro   The R package \pkgNonProbEst for
                                  estimation in non-probability surveys    406--418
Juan Carlos Gonçalves-Dosantos and   
Ignacio García-Jurado and   
            Julián Costa   \pkgProjectManagement: an R Package for
                                  Managing Projects  . . . . . . . . . . . 419--436
           Daniel Nüst and   
          Dirk Eddelbuettel and   
                Dom Bennett and   
          Robrecht Cannoodt and   
                  Dav Clark and   
     Gergely Daróczi and   
             Mark Edmondson and   
                  Colin Fay and   
               Ellis Hughes and   
            Lars Kjeldgaard and   
                  Sean Lopp and   
                Ben Marwick and   
              Heather Nolis and   
           Jacqueline Nolis and   
                   Hong Ooi and   
                Karthik Ram and   
                  Noam Ross and   
              Lori Shepherd and   
Péter Sólymos and   
          Tyson Lee Swetnam and   
              Nitesh Turaga and   
      Charlotte Van Petegem and   
             Jason Williams and   
               Craig Willis and   
                       Nan Xiao   The Rockerverse: Packages and
                                  Applications for Containerisation with R 437--461
               John M. Chambers   \pkgS, R, and Data Science . . . . . . . 462--476
                   John C. Nash   Provenance of R's Gradient Optimizers    477--483
       Micha\l Burdukiewicz and   
             Filip Pietluch and   
      Jaros\law Chilimoniuk and   
        Katarzyna Sidorczuk and   
             Dominik Rafacz and   
         Leon Eyrich Jessen and   
        Stefan Rödiger and   
    Marcin Kosin \acute ski and   
            Piotr Wójcik   Conference Report: Why R? 2019 . . . . . 484--484
                Kurt Hornik and   
                 Uwe Ligges and   
                  Achim Zeileis   Changes on CRAN  . . . . . . . . . . . . 485--497
                Torsten Hothorn   R Foundation News  . . . . . . . . . . . 498--498

The R Journal
Volume 12, Number 2, December, 2020

                Michael J. Kane   Editorial  . . . . . . . . . . . . . . . 4--5
                Yaohui Zeng and   
                Patrick Breheny   The \pkgbiglasso Package: a Memory- and
                                  Computation-Efficient Solver for Lasso
                                  Model Fitting with Big Data in R . . . . 6--19
             Hsin-wen Chang and   
              Pei-Yuan Tsai and   
                Jen-Tse Kao and   
                    Guo-You Lan   Comparing Multiple Survival Functions
                                  with Crossing Hazards in R . . . . . . . 20--42
               Dongshin Kim and   
                 Sangin Lee and   
                  Sunghoon Kwon   A Unified Algorithm for the Non-Convex
                                  Penalized Estimation: The \pkgncpen
                                  Package  . . . . . . . . . . . . . . . . 43--60
                 Yuqing Pan and   
                   Qing Mai and   
                      Xin Zhang   \pkgTULIP: a Toolbox for Linear
                                  Discriminant Analysis with Penalties . . 61--81
              Robert Nguyen and   
                  James Day and   
               David Warton and   
                     Oscar Lane   \pkgfitzRoy --- An R Package to
                                  Encourage Reproducible Sports Analysis   82--106
Mario González-Sales and   
         Olivier Barri\`ere and   
    Pierre Olivier Tremblay and   
        Guillaume Bonnefois and   
           Julie Desrochers and   
                   Fahima Nekka   Assembling Pharmacometric Datasets in R
                                  --- The \pkgpuzzle Package . . . . . . . 107--119
                   Hesen Li and   
             Hakan Demirtas and   
                    Ruizhe Chen   \pkgRNGforGPD: an R Package for
                                  Generation of Univariate and
                                  Multivariate Generalized Poisson Data    120--133
              Mustafa Cavus and   
                Berna Yaz\i c\i   Testing the equality of normal
                                  distributed and independent groups'
                                  means under unequal variances by
                                  \pkgdoex package . . . . . . . . . . . . 134--154
             Peter Kasprzak and   
           Lachlan Mitchell and   
             Olena Kravchuk and   
                   Andy Timmins   Six Years of \pkgShiny in Research ---
                                  Collaborative Development of Web Tools
                                  in R . . . . . . . . . . . . . . . . . . 155--162
          Eric S. Kawaguchi and   
              Jenny I. Shen and   
                    Gang Li and   
                Marc A. Suchard   A Fast and Scalable Implementation
                                  Method for Competing Risks Data with the
                                  R Package \pkgfastcmprsk . . . . . . . . 163--172
             Margot Selosse and   
             Julien Jacques and   
           Christophe Biernacki   \pkgordinalClust: an R Package to
                                  Analyze Ordinal Data . . . . . . . . . . 173--188
          Catherine Schramm and   
Sébastien Jacquemont and   
            Karim Oualkacha and   
       Aurélie Labbe and   
          Celia M. T. Greenwood   \pkgKSPM: a Package For Kernel
                                  Semi-Parametric Models . . . . . . . . . 189--208
          Raymond Lagonigro and   
                Ramon Oller and   
            Joan Carles Martori   \pkgAQuadtree: an R Package for Quadtree
                                  Anonymization of Point Data  . . . . . . 209--225
          Paul M. Hargarten and   
               David C. Wheeler   \pkgmiWQS: Multiple Imputation Using
                                  Weighted Quantile Sum Regression . . . . 226--250
            Patrick Lloyd-Smith   Kuhn--Tucker and Multiple
                                  Discrete-Continuous Extreme Value Model
                                  Estimation and Simulation in R: The
                                  \pkgrmdcev Package . . . . . . . . . . . 251--265
                  Xialu Liu and   
                  Rong Chen and   
                      Ruey Tsay   \pkgNTS: an R Package for Nonlinear Time
                                  Series Analysis  . . . . . . . . . . . . 266--292
                   Paula Moraga   Species Distribution Modeling using
                                  Spatial Point Processes: a Case Study of
                                  Sloth Occurrence in Costa Rica . . . . . 293--310
Pere Millán-Martínez and   
                    Ramon Oller   A Graphical EDA Tool with \pkgggplot2:
                                  \pkgbrinton  . . . . . . . . . . . . . . 311--320
Inmaculada Pérez-Bernabé and   
           Ana D. Maldonado and   
    Antonio Salmerón and   
              Thomas D. Nielsen   \pkgMoTBFs: an R Package for Learning
                                  Hybrid Bayesian Networks Using Mixtures
                                  of Truncated Basis Functions . . . . . . 321--341
            Michael J. Kane and   
                   Nan Chen and   
        Alexander M. Kaizer and   
                  Xun Jiang and   
                 H. Amy Xia and   
                 Brian P. Hobbs   Analyzing Basket Trials under
                                  Multisource Exchangeability Assumptions  342--358
            Reginal Exavier and   
                Peter Zeilhofer   \pkgOpenLand: Software for Quantitative
                                  Analysis and Visualization of Land Use
                                  and Cover Change . . . . . . . . . . . . 359--371
              Koushiki Bose and   
               Jianqing Fan and   
                    Yuan Ke and   
                 Xiaoou Pan and   
                   Wen-Xin Zhou   \pkgFarmTest: an R Package for
                                  Factor-Adjusted Robust Multiple Testing  372--387
                Genaro Sucarrat   User-Specified General-to-Specific and
                                  Indicator Saturation Methods . . . . . . 388--401
             Tomas Kalibera and   
            Sebastian Meyer and   
                    Kurt Hornik   Changes in R 3.6--4.0  . . . . . . . . . 402--406
                Kurt Hornik and   
                 Uwe Ligges and   
                  Achim Zeileis   Changes on CRAN  . . . . . . . . . . . . 407--409
         Bioconductor Core Team   News from the Bioconductor Project . . . 410--410
                 Heather Turner   News from the Forwards Taskforce . . . . 411--412
                Torsten Hothorn   R Foundation News  . . . . . . . . . . . 413--416
        Mariachiara Fortuna and   
         Francesca Vitalini and   
           Mirko Signorelli and   
           Emanuela Furfaro and   
            Federico Marini and   
       Gert Janssenswillen' and   
           Riccardo Porreca and   
          Riccardo L. Rossi and   
               Andrea Guzzo and   
           Roberta Sirovich and   
         Andrea Melloncelli and   
              Lorenzo Salvi and   
          Serena Signorelli and   
              Filippo Chiarello   \pkge-Rum2020: how we turned a physical
                                  conference into a successful virtual
                                  event  . . . . . . . . . . . . . . . . . 417--425