A survey of statistical software for analysing RNA-seq data

Hum Genomics. 2010 Oct;5(1):56-60. doi: 10.1186/1479-7364-5-1-56.


High-throughput RNA sequencing is rapidly emerging as a favourite method for gene expression studies. We review three software packages - edgeR, DEGseq and baySeq - from Bioconductor http://bioconductor.org for analysing RNA-sequencing data. We focus on three aspects: normalisation, statistical models and the testing employed on these methods. We also discuss the advantages and limitations of these software packages.

Publication types

  • Evaluation Study

MeSH terms

  • Databases, Nucleic Acid*
  • Gene Expression Profiling / methods*
  • Gene Expression Regulation*
  • Models, Statistical*
  • Software*