Volume 9/1

Articles published in the June 2017 issue

Complete issue

Table of contents

Roger Bivand 4

Contributed Research Articles

iotools: High-Performance I/O Tools for R
Taylor Arnold, Michael J. Kane and Simon Urbanek 6

IsoGeneGUI: Multiple Approaches for Dose-Response Analysis of Microarray Data Using R
Martin Otava, Rudradev Sengupta, Ziv Shkedy, Dan Lin, Setia Pramana, Tobias Verbeke, Philippe Haldermans, Ludwig A. Hothorn, Daniel Gerhard, Rebecca M. Kuiper, Florian Klinglmueller and Adetayo Kasim 14

Network Visualization with ggplot2
Sam Tyner, François Briatte and Heike Hofmann 27

OrthoPanels: An R Package for Estimating a Dynamic Panel Model with Fixed Effects Using the Orthogonal Reparameterization Approach
Mark Pickup, Paul Gustafson, Davor Cubranic and Geoffrey Evans 60

The mosaic Package: Helping Students to Think with Data Using R
Randall Pruim, Daniel T Kaplan and Nicholas J Horton 77

smoof: Single- and Multi-Objective Optimization Test Functions
Jakob Bossek 103

minval: An R package for MINimal VALidation of Stoichiometric Reactions
Daniel Osorio, Janneth González and Andrés Pinzón 114

Working with Daily Climate Model Output Data in R and the futureheatwaves Package
G. Brooke Anderson, Colin Eason and Elizabeth A. Barnes 124

alineR: an R Package for Optimizing Feature-Weighted Alignments and Linguistic Distances
Sean S. Downey, Guowei Sun and Peter Norquest 138

Implementing a Metapopulation Bass Diffusion Model using the R Package deSolve
Jim Duggan 153

MDplot: Visualise Molecular Dynamics
Christian Margreitter and Chris Oostenbrink 164

On Some Extensions to GA Package: Hybrid Optimisation, Parallelisation and Islands EvolutionOn some extensions to GA package: hybrid optimisation, parallelisation and islands evolution
Luca Scrucca 187

imputeTS: Time Series Missing Value Imputation in R
Steffen Moritz and Thomas Bartz-Beielstein 207

The NoiseFiltersR Package: Label Noise Preprocessing in R
Pablo Morales, Julián Luengo, Luís P.F. Garcia, Ana C. Lorena, André C.P.L.F. de Carvalho and Francisco Herrera 219

coxphMIC: An R Package for Sparse Estimation of Cox Proportional Hazards Models via Approximated Information Criteria
Razieh Nabi and Xiaogang Su 229

Update of the nlme Package to Allow a Fixed Standard Deviation of the Residual Error
Simon H. Heisterkamp, Engelbertus van Willigen, Paul-Matthias Diderichsen and John Maringwa 239

EMSaov: An R Package for the Analysis of Variance with the Expected Mean Squares and its Shiny Application
Hye-Min Choe, Mijeong Kim and Eun-Kyung Lee 252

GsymPoint: An R Package to Estimate the Generalized Symmetry Point, an Optimal Cut-off Point for Binary Classification in Continuous Diagnostic Tests
Mónica López-Ratón, Elisa M. Molanes-López, Emilio Letón and Carmen Cadarso-Suárez 262

autoimage: Multiple Heat Maps for Projected Coordinates
Joshua P. French 284

Market Area Analysis for Retail and Service Locations with MCI
Thomas Wieland 298

PSF: Introduction to R Package for Pattern Sequence Based Forecasting Algorithm
Neeraj Bokde, Gualberto Asencio-Cortés, Francisco Martínez-Álvarez and Kishore Kulat 324

flan: An R Package for Inference on Mutation Models.
Adrien Mazoyer, Rémy Drouilhet, Stéphane Despréaux and Bernard Ycart 334

Multilabel Classification with R Package mlr
Philipp Probst, Quay Au, Giuseppe Casalicchio, Clemens Stachl and Bernd Bischl 352

Counterfactual: An R Package for Counterfactual Analysis
Mingli Chen, Victor Chernozhukov, Iván Fernández-Val and Blaise Melly 370

Retrieval and Analysis of Eurostat Open Data with the eurostat Package
Leo Lahti, Janne Huovari, Markus Kainu and Przemysław Biecek 385

PGEE: An R Package for Analysis of Longitudinal Data with High-Dimensional Covariates
Gul Inan and Lan Wang 393

BayesBinMix: an R Package for Model Based Clustering of Multivariate Binary Data
Panagiotis Papastamoulis and Magnus Rattray 403

pdp: An R Package for Constructing Partial Dependence Plots
Brandon M. Greenwell 421

checkmate: Fast Argument Checks for Defensive R Programming
Michel Lang 437

milr: Multiple-Instance Logistic Regression with Lasso Penalty
Ping-Yang Chen, Ching-Chuan Chen, Chun-Hao Yang, Sheng-Mao Chang and Kuo-Jung Lee 446

spcadjust: An R Package for Adjusting for Estimation Error in Control Charts
Axel Gandy and Jan Terje Kvaløy 458

Weighted Effect Coding for Observational Data with wec
Rense Nieuwenhuis, Manfred te Grotenhuis and Ben Pelzer 477

Hosting Data Packages via drat: A Case Study with Hurricane Exposure Data
G. Brooke Anderson and Dirk Eddelbuettel 486

News and Notes

R Foundation News
Torsten Hothorn 498

Conference Report: European R Users Meeting 2016
Maciej Beręsewicz, Adolfo Alvarez, Przemysław Biecek, Marcin K. Dyderski, Marcin Kosinski, Jakub Nowosad, Kamil Rotter, Alicja Szabelska-Beręsewicz, Marcin Szymkowiak, Łukasz Wawrowski and Joanna Zyprych-Walczak 501

Changes on CRAN
Kurt Hornik, Uwe Ligges and Achim Zeileis 505

News from the Bioconductor Project
Bioconductor Core Team 508

Changes in R
R Core Team 509