Vol 46 (2012)

Articles
Interactive and Animated Scalable Vector Graphics and R Data Displays

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Deborah Nolan, Duncan Temple Lang

BIEMS: A Fortran 90 Program for Calculating Bayes Factors for Inequality and Equality Constrained Models

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Joris Mulder, Herbert Hoijtink, Christiaan de Leeuw

A Multi-Language Computing Environment for Literate Programming and Reproducible Research

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Eric Schulte, Dan Davison, Thomas Dye, Carsten Dominik

An SPSS R-Menu for Ordinal Factor Analysis

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Mrio Basto, Jos Manuel Pereira

Multi-Objective Parameter Selection for Classifiers

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Christoph Mssel, Ludwig Lausser, Markus Maucher, Hans A. Kestler

HDclassif: An R Package for Model-Based Clustering and Discriminant Analysis of High-Dimensional Data

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Laurent Berg, Charles Bouveyron, Stphane Girard

Neural Networks in R Using the Stuttgart Neural Network Simulator: RSNNS

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Christoph Bergmeir, Jos M. Bentez

Introducing multivator: A Multivariate Emulator

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Robin K. S. Hankin
The R Package bild for the Analysis of Binary Longitudinal Data

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M. Helena Gonalves, M. Salom Cabral, Adelchi Azzalini

Graphical Independence Networks with the gRain Package for R

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Sren Hjsgaard
Fast R Functions for Robust Correlations and Hierarchical Clustering

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Peter Langfelder, Steve Horvath

Multivariate Generalizations of the Multiplicative Binomial Distribution: Introducing the MM Package

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Pat M. E. Altham, Robin K. S. Hankin

survivalBIV: Estimation of the Bivariate Distribution Function for Sequentially Ordered Events Under Univariate Censoring

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Ana Cristina Moreira, Lus Filipe Meira Machado

The benchden Package: Benchmark Densities for Nonparametric Density Estimation

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Thoralf Mildenberger, Henrike Weinert

Code Snippets
SIMEX R Package for Accelerated Failure Time Models with Covariate Measurement Error

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Wenqing He, Juan Xiong, Grace Y. Yi

%PROC_R: A SAS Macro that Enables Native R Programming in the Base SAS Environment

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Xin Wei
Intake_epis_food(): An R Function for Fitting a Bivariate Nonlinear Measurement Error Model to Estimate Usual and Energy Intake for Episodically
Consumed Foods
Adriana Prez, Saijuan Zhang, Victor Kipniss, Laurence S. Freedman, Raymond J. Carroll
Book Reviews
Analysis of Questionnaire Data with R

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Ronald D. Fricker
R in Action
Dirk Eddelbuettel

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Vol 47 (2012)
Table of Contents
Articles
splm: Spatial Panel Data Models in R

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Giovanni Millo, Gianfranco Piras

GeoXp: An R Package for Exploratory Spatial Data Analysis

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Thibault Laurent, Anne Ruiz-Gazen, Christine Thomas-Agnan

The R Package bgmm: Mixture Modeling with Uncertain Knowledge

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Przemyslaw Biecek, Ewa Szczurek, Martin Vingron, Jerzy Tiuryn

frailtypack: An R Package for the Analysis of Correlated Survival Data with Frailty Models Using Penalized Likelihood Estimation or Parametrical Estimation

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Virginie Rondeau, Yassin Marzroui, Juan R. Gonzalez

High-Dimensional Bayesian Clustering with Variable Selection: The R Package bclust

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Vahid Partovi Nia, Anthony C. Davison

A Greedy Algorithm for Unimodal Kernel Density Estimation by Data Sharpening

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Mark A. Wolters
MPCI: An R Package for Computing Multivariate Process Capability Indices

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Edgar Santos-Fernndez, Michele Scagliarini

Variable Penalty Dynamic Time Warping Code for Aligning Mass Spectrometry Chromatograms in R

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David Clifford, Glenn Stone

Coordinate Descent Methods for the Penalized Semiparametric Additive Hazards Model

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Anders Gorst-Rasmussen, Thomas H. Scheike

Classification Trees for Ordinal Responses in R: The rpartScore Package

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Giuliano Galimberti, Gabriele Soffritti, Matteo Di Maso

Causal Inference Using Graphical Models with the R Package pcalg

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Markus Kalisch, Martin Mchler, Diego Colombo, Marloes H. Maathuis, Peter Bhlmann
tclust: An R Package for a Trimming Approach to Cluster Analysis

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Heinrich Fritz, Luis A. Garca-Escudero, Agustn Mayo-Iscar

An Exact Algorithm for Weighted-Mean Trimmed Regions in Any Dimension

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Pavel Bazovkin, Karl Mosler

bayesclust: An R Package for Testing and Searching for Significant Clusters

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Vikneswaran Gopal, Claudio Fuentes, George Casella

Code Snippets
R Functions for Sample Size and Probability Calculations for Assessing Consistency of Treatment Effects in Multi-Regional Clinical Trials

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Mingyu Li, Hui Quan, Joshua Chen, Yoko Tanaka, Peter Ouyang, Xiaolong Luo, Gang Li
Separation-Resistant and Bias-Reduced Logistic Regression: STATISTICA Macro

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Kamil Fijorek, Andrzej Sokolowski

Book Reviews
Modern Fortran: Style and Usage

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Jan de Leeuw
Software Reviews
mathStatica 2.5

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Barrie Stokes
DataGraph 3.0
Michael R. MacAskill

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Vol 48 (2012)
Special Volume: Psychoco: Psychometric Computing in R (Editors: Florian Wickelmaier, Carolin Strobl, Achim Zeileis)
Table of Contents
Articles
Psychoco: Psychometric Computing in R

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Florian Wickelmaier, Carolin Strobl, Achim Zeileis

lavaan: An R Package for Structural Equation Modeling

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Yves Rosseel
semPLS: Structural Equation Modeling Using Partial Least Squares

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Armin Monecke, Friedrich Leisch

qgraph: Network Visualizations of Relationships in Psychometric Data

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Sacha Epskamp, Anglique O.J. Cramer, Lourens J. Waldorp, Verena D. Schmittmann, Denny Borsboom
New Developments in Mokken Scale Analysis in R

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L. Andries van der Ark

mirt: A Multidimensional Item Response Theory Package for the R Environment

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R. Philip Chalmers
Flexible Rasch Mixture Models with Package psychomix

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Hannah Frick, Carolin Strobl, Friedrich Leisch, Achim Zeileis

Random Generation of Response Patterns under Computerized Adaptive Testing with the R Package catR

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David Magis, Gilles Rache

Bradley-Terry Models in R: The BradleyTerry2 Package

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Heather Turner, David Firth

prefmod: An R Package for Modeling Preferences Based on Paired Comparisons, Rankings, or Ratings

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Reinhold Hatzinger, Regina Dittrich

Extended Beta Regression in R: Shaken, Stirred, Mixed, and Partitioned

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Bettina Grn, Ioannis Kosmidis, Achim Zeileis

Code Snippets
IRTrees: Tree-Based Item Response Models of the GLMM Family
Paul De Boeck, Ivailo Partchev

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Vol 49 (2012)
Special Volume: Graphical User Interfaces for R (Editors: Pedro M. Valero-Mora, Rubn D. Ledesma)
Table of Contents
Articles
Graphical User Interfaces for R

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Pedro M. Valero-Mora, Ruben Ledesma

Integrated Degradation Models in R Using iDEMO

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Ya-Shan Cheng, Chien-Yu Peng

Glotaran: A Java-Based Graphical User Interface for the R Package TIMP

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Joris J. Snellenburg, Sergey Laptenok, Ralf Seger, Katharine M. Mullen, Ivo H. M. van Stokkum
A Graphical User Interface for R in a Rich Client Platform for Ecological Modeling

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Marcel Austenfeld, Wolfram Beyschlag

Closing the Gap between Methodologists and End-Users: R as a Computational Back-End

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Byron C. Wallace, Issa J. Dahabreh, Thomas A. Trikalinos, Joseph Lau, Paul Trow, Christopher H. Schmid
tourrGui: A gWidgets GUI for the Tour to Explore High-Dimensional Data Using Low-Dimensional Projections

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Bei Huang, Dianne Cook, Hadley Wickham

The RcmdrPlugin.survival Package: Extending the R Commander Interface to Survival Analysis

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John Fox, Marilia S. Carvalho

Deducer: A Data Analysis GUI for R

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Ian Fellows
RKWard: A Comprehensive Graphical User Interface and Integrated Development Environment for Statistical Analysis with R

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Stefan Rdiger, Thomas Friedrichsmeier, Prasenjit Kapat, Meik Michalke

gWidgetsWWW: Creating Interactive Web Pages within R

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John Verzani
Oscars and Interfaces
Antony Unwin

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Vol 50 (2012)
Table of Contents
Articles
MortalitySmooth: An R Package for Smoothing Poisson Counts with P-Splines

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Carlo G. Camarda
Data Analysis with the Morse-Smale Complex: The msr Package for R

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Samuel Gerber, Kristin Potter

NParCov3: A SAS/IML Macro for Nonparametric Randomization-Based Analysis of Covariance

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Richard C. Zink, Gary G. Koch

bspmma: An R Package for Bayesian Semiparametric Models for Meta-Analysis

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Deborah Burr
GrassmannOptim: An R Package for Grassmann Manifold Optimization

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Kofi Placid Adragni, R. Dennis Cook, Seongho Wu

dlmap: An R Package for Mixed Model QTL and Association Analysis

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B. Emma Huang, Rohan Shah, Andrew W. George

The R Package metaLik for Likelihood Inference in Meta-Analysis

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Annamaria Guolo, Cristiano Varin

Nonparametric Kernel Distribution Function Estimation with kerdiest: An R Package for Bandwidth Choice and Applications

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Alejandro Quintela-del-Ro, Graciela Estvez-Prez

solaR: Solar Radiation and Photovoltaic Systems with R

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Oscar Perpin Lamigueiro

Spherical k-Means Clustering

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Kurt Hornik, Ingo Feinerer, Martin Kober, Christian Buchta

Evaluating Random Forests for Survival Analysis Using Prediction Error Curves

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Ulla B. Mogensen, Hemant Ishwaran, Thomas A. Gerds

nparLD: An R Software Package for the Nonparametric Analysis of Longitudinal Data in Factorial Experiments

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Kimihiro Noguchi, Yulia R. Gel, Edgar Brunner, Frank Konietschke

ClustOfVar: An R Package for the Clustering of Variables

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Marie Chavent, Vanessa Kuentz-Simonet, Benot Liquet, Jrme Saracco

msSurv: An R Package for Nonparametric Estimation of Multistate Models

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Nicole Ferguson, Somnath Datta, Guy Brock

Code Snippets
Random Number Generation in gretl

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A. Talha Yalta, Sven Schreiber

Basic Functions for Supporting an Implementation of Choice Experiments in R

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Hideo Aizaki
Book Reviews
R for Dummies
Dirk Eddelbuettel

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Vol 51 (2012)
Table of Contents
Articles
DiceKriging, DiceOptim: Two R Packages for the Analysis of Computer Experiments by Kriging-Based Metamodeling and Optimization

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Olivier Roustant, David Ginsbourger, Yves Deville

speedR: An R Package for Interactive Data Import, Filtering and Ready-to-Use Code Generation

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Ilhami Visne, Ahmet Yildiz, Ekran Dilaveroglu, Klemens Vierlinger, Christa Nhammer, Friedrich Leisch, Albert Kriegner
DiagTest3Grp: An R Package for Analyzing Diagnostic Tests with Three Ordinal Groups

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Jingqin Luo, Chengjie Xiong

Statistical Computing in Functional Data Analysis: The R Package fda.usc

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Manuel Febrero-Bande, Manuel Oviedo de la Fuente

A tm Plug-In for Distributed Text Mining in R

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Stefan Theul, Ingo Feinerer, Kurt Hornik

A Package to Study the Performance of Step-Up and Step-Down Test Procedures

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Paul N. Somerville
spacetime: Spatio-Temporal Data in R

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Edzer Pebesma
Multiple-Table Data in R with the multitable Package

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Steven C. Walker, Guillaume Gunard, Pter Slymos, Pierre Legendre

Estimating Population Abundance Using Sightability Models: R SightabilityModel Package

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John R. Fieberg
Meta-Statistics for Variable Selection: The R Package BioMark

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Ron Wehrens, Pietro Franceschi

parfm: Parametric Frailty Models in R

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Marco Munda, Federico Rotolo, Catherine Legrand

MixSim: An R Package for Simulating Data to Study Performance of Clustering Algorithms

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Volodymyr Melnykov, Wei-Chen Chen, Ranjan Maitra

tmle: An R Package for Targeted Maximum Likelihood Estimation

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Susan Gruber, Mark van der Laan

Code Snippets
%GI: A SAS Macro for Measuring and Testing Global Imbalance of Covariates within Subgroups

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Furio Camillo, Ida D\'Attoma

Book Reviews
R for Statistics
Irina Kukuyeva

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Vol 52 (2013)
Table of Contents
Articles
The cg Package for Comparison of Groups

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Bill Pikounis, John Oleynick

ergm.userterms: A Template Package for Extending statnet

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David R. Hunter, Steven M. Goodreau, Mark S. Handcock

Modeling Dependence with C- and D-Vine Copulas: The R Package CDVine

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Eike Christian Brechmann, Ulf Schepsmeier

lgcp: An R Package for Inference with Spatial and Spatio-Temporal Log-Gaussian Cox Processes

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Benjamin M. Taylor, Tilman M. Davies, Barry S. Rowlingson, Peter J. Diggle

Fast and Elegant Numerical Linear Algebra Using the RcppEigen Package

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Douglas Bates, Dirk Eddelbuettel

The textcat Package for n-Gram Based Text Categorization in R

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Kurt Hornik, Patrick Mair, Johannes Rauch, Wilhelm Geiger, Christian Buchta, Ingo Feinerer
Spreadsheets in the Cloud - Not Ready Yet

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Bruce D. McCullough, A. Talha Yalta

moult: An R Package to Analyze Moult in Birds

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Birgit Erni, Bo T. Bonnevie, Hans-Dieter Oschadleus, Res Altwegg, Les G. Underhill

edcc: An R Package for the Economic Design of the Control Chart

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Weicheng Zhu, Changsoon Park

Recursive Numerical Evaluation of the Cumulative Bivariate Normal Distribution

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Christian Meyer
runmlwin: A Program to Run the MLwiN Multilevel Modeling Software from within Stata

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George Leckie, Chris Charlton

MIXREGLS: A Program for Mixed-Effects Location Scale Analysis

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Donald Hedeker, Rachel Nordgren

Code Snippets
BiDimRegression: Bidimensional Regression Modeling Using R

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Claus-Christian Carbon
Book Reviews
The BUGS Book: A Practical Introduction to Bayesian Analysis

PDF

Joakim Ekstrm
Applied Medical Statistics Using SAS

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Kelcey Jasen, Luigi Salmaso

The R Primer

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Ulrike Grmping
The R Student Companion
Norman S. Matloff

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Vol 53 (2013)
Table of Contents
Articles
animation: An R Package for Creating Animations and Demonstrating Statistical Methods

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Yihui Xie
stpp: An R Package for Plotting, Simulating and Analyzing Spatio-Temporal Point Patterns

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Edith Gabriel, Barry S. Rowlingson, Peter J. Diggle

Fast and Robust Bootstrap for Multivariate Inference: The R Package FRB

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Stefan Van Aelst, Gert Willems

GA: A Package for Genetic Algorithms in R

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Luca Scrucca
cts: An R Package for Continuous Time Autoregressive Models via Kalman Filter

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Zhu Wang
Interactive Network Exploration with Orange

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Miha tajdohar, Janez Demar

New Approaches in Visualization of Categorical Data: R Package extracat

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Alexander Pilhfer, Antony Unwin

profdpm: An R Package for MAP Estimation in a Class of Conjugate Product Partition Models

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Matthew S. Shotwell
fastcluster: Fast Hierarchical, Agglomerative Clustering Routines for R and Python

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Daniel Mllner
Minimum-Size Mixed-Level Orthogonal Fractional Factorial Designs Generation: A SAS-Based Algorithm

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Roberto Fontana, Sabrina Samp

A Distributed Procedure for Computing Stochastic Expansions with Mathematica

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Christophe Ladroue, Anastasia Papavaviliou

stgenreg: A Stata Package for General Parametric Survival Analysis
Michael J. Crowther, Paul C. Lambert

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Vol 54 (2013)
Table of Contents
Articles
Fitting Additive Binomial Regression Models with the R Package blm

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Stephanie Kovalchik, Ravi Varadhan

adabag: An R Package for Classification with Boosting and Bagging

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Esteban Alfaro, Matias Gamez, Noelia Garca

dbEmpLikeGOF: An R Package for Nonparametric Likelihood Ratio Tests for Goodness-of-Fit and Two-Sample Comparisons Based on Sample Entropy

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Jeffrey Miecznikowski, Albert Vexler, Lori Shepherd

isocir: An R Package for Constrained Inference Using Isotonic Regression for Circular Data, with an Application to Cell Biology

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Sandra Barragn, Miguel Fernndez, Cristina Rueda, Shyamal Peddada

RMatlab-app2web: Web Deployment of R/MATLAB Applications

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Armin Varmaz, Christian Fieberg, Andreas Varwig

Sustainable, Extensible Documentation Generation Using inlinedocs

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Toby Dylan Hocking, Thomas Wutzler, Keith Ponting, Philippe Grosjean

ebalance: A Stata Package for Entropy Balancing

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Jens Hainmueller, Yiqing Xu

A Fortran 90 Program for the Generalized Order-Restricted Information Criterion

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Rebecca M. Kuiper, Herbert Hoijtink

Simultaneous Optimization of Multiple Responses with the R Package JOP

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Sonja Kuhnt, Nikolaus Rudak

GLIMMPSE: Online Power Computation for Linear Models with and without a Baseline Covariate

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Sarah M. Kreidler, Keith E. Muller, Gary Grunwald, Brandy M. Ringham, Zacchary T. Coker-Dukowitz, Uttara R. Sakhadeo, Anna E. Barn, Deborah H. Glueck
survPresmooth: An R Package for Presmoothed Estimation in Survival Analysis

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ignacio Lpez-de-Ullibarri, M. Amalia Jcome

mixsmsn: Fitting Finite Mixture of Scale Mixture of Skew-Normal Distributions

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Marcos Oliveira Prates, Victor Hugo Lachos, Celso Rmulo Barbosa Cabral
bcrm: Bayesian Continual Reassessment Method Designs for Phase I Dose-Finding Trials

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Michael Sweeting, Adrian Mander, Tony Sabin

An R Package for Probabilistic Latent Feature Analysis of Two-Way Two-Mode Frequencies

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Michel Meulders
Estimation of Social Exclusion Indicators from Complex Surveys: The R Package laeken
Andreas Alfons, Matthias Templ

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Vol 55 (2013)
Table of Contents
Articles
Costationarity of Locally Stationary Time Series Using costat

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Alessandro Cardinali, Guy P. Nason

Nonparametric Regression via StatLSSVM

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Kris De Brabanter, Johan Suykens, Bart De Moor

Warping Functional Data in R and C via a Bayesian Multiresolution Approach

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Leen Slaets, Gerda Claeskens, Bernard W. Silverman

Logarithmic Transformation-Based Gamma Random Number Generators

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Bowei Xi, Kean Ming Tan, Chuanhai Liu

Converting Odds Ratio to Relative Risk in Cohort Studies with Partial Data Information

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Zhu Wang
Performing the Kernel Method of Test Equating with the Package kequate

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Bjrn Andersson, Kenny Brnberg, Marie Wiberg

The RAppArmor Package: Enforcing Security Policies in R Using Dynamic Sandboxing on Linux

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Jeroen Ooms
texreg: Conversion of Statistical Model Output in R to LATEX and HTML Tables

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Philip Leifeld
On Circulant Embedding for Gaussian Random Fields in R

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Tilman M. Davies, David Bryant

The lifecontingencies Package: Performing Financial and Actuarial Mathematics Calculations in R

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Giorgio Alfredo Spedicato

Hybrids of Gibbs Point Process Models and Their Implementation

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Adrian Baddeley, Rolf Turner, Jorge Mateu, Andrew Bevan

EMMIXuskew: An R Package for Fitting Mixtures of Multivariate Skew t Distributions via the EM Algorithm

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Geoff McLachlan, Sharon X Lee

CARBayes: An R Package for Bayesian Spatial Modeling with Conditional Autoregressive Priors

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Duncan Lee
Scalable Strategies for Computing with Massive Data

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Michael Kane, John W. Emerson, Stephen Weston

Code Snippets
A Greedy Algorithm for Representative Sampling: repsample in Stata
Evangelos Kontopantelis

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