[BioC] Deseq: Difference in number of reads

[Simon Anders]

Hi

> I have got a set of RNA-seq data with the control sample having around 8
> million reads and the treated samples in the range of 13-17 million reads.
>   I was wondering if DESeq can handle this kind of difference in number of
> reads between samples?  Or a down sampling of reads is necessary before
> DESeq?

No, there is no need to downsample. The statistical methods of DESeq and 
DESeq2 are designed to deal with this.

   Simon