[BioC] R package for DGE analysis between multiple RNA-Seq samples

Simon Anders anders at embl.de
Mon Jul 4 20:39:11 CEST 2011

Hi Bruno

> Have you already known about a RNA-seq R Package for the differential
> expression analysis between multiple samples (ANOVA-like) ?
> Tools such as edgeR or DESeq seems to be limited to the analysis between
> two conditions only.

No, they aren't. Both DESeq and edgeR offer ANODEV, i.e. ANOVA with 
GLMs. For DESeq, we've added the description of this to the vignette 
only recently (see the devl version) although the functions are 
available since a while. The edgeR folks describe in their manual, too.


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