[BioC] DESeq /edgeR design problem for a small RNASeq

[Simon Anders]

Hi Eduardo

On 03/06/13 20:41, Eduardo Andrés León wrote:
> Your suggestion at the end of the mail, was my starting point (MTsD vs
> MTcD). But in this case I was loosing the effect that the drug could add
> to the model.
>
> The only problem here is to remove the effect of the drug (That I can
> infer from the comparison between WTsD vs WTcD. But this also add a new
> variable ... the mice).

Sorry, you lost me now. I thought mutation and mouse stain are aliased?

What biological question do you want to address? We need some more 
details here; an abstract discussion won't lead anywhere.

   Simon