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DEA - Differential Expression Analysis workflow

DEA - Differential Expression Analysis workflow

DEA - Differential Expression Analysis workflow


DEA is a Galaxy workflow for the Differential Expression Analysis of RNA-Seq data between two conditions. It uses a bioinformatics protocol based on raw read counts from a mapping of the reads to the reference genome.

DEA is composed of a RNA-Seq mapper (Tophat, Tophat2 or GSNAP), a tool to count reads overlapping genome features (Compareoverlapping : S-Mart package ), and a DESeq package enriched with graphics. Most of the pipeline steps were customized to be parallelized on a cluster via the SGE job manager.


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Update: 08 Jul 2016
Creation date: 10 Mar 2015