publication . Article . 2014

compcodeR—an R package for benchmarking differential expression methods for RNA-seq data

Charlotte Soneson;
Open Access
  • Published: 09 May 2014 Journal: Bioinformatics, volume 30, pages 2,517-2,518 (issn: 1367-4803, eissn: 1460-2059, Copyright policy)
  • Publisher: Oxford University Press (OUP)
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.
Subjects
free text keywords: Statistics and Probability, Computational Theory and Mathematics, Biochemistry, Molecular Biology, Computational Mathematics, Computer Science Applications, Simulated data, Benchmarking, Software, business.industry, business, Differential expression, R package, Data mining, computer.software_genre, computer, RNA-Seq, Gene expression profiling, Differential expression analysis, Computer science
Related Organizations
Any information missing or wrong?Report an Issue