Volume 8/2, December 2016

Complete issue

Complete bibliography

Table of contents

Editorial
Michael Lawrence 4

Contributed Research Articles

multipleNCC: Inverse probability weighting of nested case-control data
Nathalie C. Stoer, Sven Ove Samuelsen 5

QPot: An R Package for Stochastic Differential Equation Quasi-Potential Analysis
Christopher M. Moore, Christopher R. Stieha, Ben C. Nolting, Maria K. Cameron, Karen C. Abbott 19

Design of the TRONCO BioConductor Package for TRanslational ONCOlogy
Daniele Ramazzotti, Marco Antoniotti, Giulio Caravagna, Luca De Sano, Alex Graudenzi, Giancarlo Mauri, Bud Mishra 39

diverse: an R Package to Measure Diversity in Complex Systems
Miguel R. Guevara, Dominik Hartmann, Marcelo Mendoza 60

Simulating Correlated Binary and Multinomial Responses under Marginal Model Specification: The SimCorMultRes Package
Anestis Touloumis 79

eiCompare: Comparing ecological inference estimates across EI and EI:RxC
Loren Collingwood, Kassra Oskooii, Sergio Garcia-Rios, Matt Barreto 92

RNRFA: an R package to retrieve, filter and visualize data from the UK National River Flow Archive
Claudia Vitolo, Matthew Fry, Wouter Buytaert 102

Qtools: A Collection of Models and Tools for Quantile Inference
Marco Geraci 117

Two-Tier Latent Class IRT Models in R
Silvia Bacci, Francesco Bartolucci 139

Variants of Simple Correspondence Analysis
Rosaria Lombardo, Eric J. Beh 167

hdm: High-Dimensional Metrics
Martin Spindler, Victor Chernozhukov, Chris Hansen 185

Normal Tolerance Interval Procedures in the tolerance Package
Derek Young 200

easyROC: An Interactive Web-tool for ROC Curve Analysis Using R Language Environment
Dincer Goksuluk, Selcuk Korkmaz, Gokmen Zararsiz, Ergun Karaagaoglu 213

tigris: An R Package to Access and Work with Geographic Data from the US Census Bureau
Kyle Walker 231

Escape from Boxland: Generating a Library of High-Dimensional Geometric Shapes
Barret Schloerke, Hadley Wickham, Dianne Cook, and Heike Hofmann 243

Ake: An R Package for Discrete and Continuous Associated Kernel Estimations
Sobom M. Somé, Wanbitching E. Wansouwé, Célestin C. Kokonendji 258

An Introduction to Principal Surrogate Evaluation with the pseval Package
Michael C Sachs, Erin E Gabriel 277

Calculating Biological Module Enrichment or Depletion and Visualizing Data on Large-scale Molecular Maps with ACSNMineR and RNaviCell packages
Paul Deveau, Emmanuel Barillot, Valentina Boeva, Andrei Zinovyev, Eric Bonnet 293

Subgroup Discovery with Evolutionary Fuzzy Systems in R: The SDEFSR Package
Ángel M. García, Francisco Charte, Pedro González, Cristóbal J. Carmona, María J. del Jesús 307

dCovTS: Distance Covariance/Correlation for Time Series
Maria Pitsillou, Konstantinos Fokianos 324

comf: An R Package for Thermal Comfort Studies
Marcel Schweiker 341

water: Tools and Functions to estimate Actual Evapotranspiration using Land Surface Energy Balance Models in R
Guillermo Federico Olmedo, Samuel Ortega-Farías, Daniel de la Fuente-Sáiz, David Fonseca-Luengo, Fernando Fuentes-Peñailillo 352

quantreg.nonpar: An R Package for Performing Nonparametric Series Quantile Regression
Michael Lipsitz, Alexandre Belloni, Victor Chernozhukov, Ivan Fernandez-Val 370

nmfgpu4R: GPU-Accelerated Computation of the Non-Negative Matrix Factorization (NMF) Using CUDA Capable Hardware
Sven Koitka, Christoph M. Friedrich 382

Computing Pareto Frontiers and Database Preferences with the rPref Package
Patrick Roocks 393

micompr: An R Package for Multivariate Independent Comparison of Observations
Nuno Fachada, João Rodrigues, Vitor V. Lopes, Rui C. Martins, Agostinho C. Rosa 405

mixtox: An R Package for Mixture Toxicity Assessment
Xiangwei Zhu, Jianyi Chen 421

Weighted Distance Based Discriminant Analysis: The R package WeDiBaDis
Concepcion Arenas Sola, Itziar Irigoien, Francesc Mestres, Concepción Arenas 434

Distance Measures for Time Series in R: The TSdist Package
Usue Mori, Usue Mori, Alexander Mendiburu, Jose A. Lozano 451

condSURV: An R Package for the Estimation of the Conditional Survival Function for Ordered Multivariate Failure Time Data
Luis Meira-Machado, Marta Sestelo 460

ggfortify: Unified Interface to Visualize Statistical Result of Popular R Packages
Yuan Tang, Masaaki Horikoshi, Wenxuan Li 474

Measurement Units in R
Edzer Pebesma, Thomas Mailund, James Hiebert 486

mctest: An R Package for Detection of Collinearity Among Regressors
Muhammad Imdadullah, Muhammad Aslam, Saima Altaf 495

News and Notes

R Foundation News
by Torsten Hothorn 506

Changes on CRAN
by Kurt Hornik and Achim Zeileis 507

News from the Bioconductor Project
by Bioconductor Core Team 510

Changes in R
by the R Core Team 511