Charlotte Soneson1. 1. Bioinformatics Core Facility, SIB Swiss Institute of Bioinformatics, Quartier Sorge, CH-1015 Lausanne, Switzerland.
Abstract
UNLABELLED: compcodeR is an R package for benchmarking of differential expression analysis methods, in particular, methods developed for analyzing RNA-seq data. The package provides functionality for simulating realistic RNA-seq count datasets, an interface to several of the most commonly used differential expression analysis methods and extensive functionality for evaluating and comparing different approaches on real and simulated data. AVAILABILITY AND IMPLEMENTATION: compcodeR is available from http://www.bioconductor.org/packages/release/bioc/html/compcodeR.html.
UNLABELLED: compcodeR is an R package for benchmarking of differential expression analysis methods, in particular, methods developed for analyzing RNA-seq data. The package provides functionality for simulating realistic RNA-seq count datasets, an interface to several of the most commonly used differential expression analysis methods and extensive functionality for evaluating and comparing different approaches on real and simulated data. AVAILABILITY AND IMPLEMENTATION: compcodeR is available from http://www.bioconductor.org/packages/release/bioc/html/compcodeR.html.
Authors: Nicholas J Schurch; Pietá Schofield; Marek Gierliński; Christian Cole; Alexander Sherstnev; Vijender Singh; Nicola Wrobel; Karim Gharbi; Gordon G Simpson; Tom Owen-Hughes; Mark Blaxter; Geoffrey J Barton Journal: RNA Date: 2016-03-28 Impact factor: 4.942