[BioC] edgeR: Contrast selection
Simon Anders
anders at embl.de
Fri Dec 18 16:55:58 CET 2009
Hi
Krys Kelly wrote:
> You could try Tom Hardcastle's baySeq package which allows more complex
> designs. There isn't an example of a three group design in the vignette,
> but there is one in the draft manuscript which we are about to send off.
> Perhaps Tom might email you a copy of this example.
Actually, I don't have a more complex design. The main limitation of
edgeR is that you cannot form complex contrasts such as an interaction
vs the sum of two main effects, or the like.
However, having more than two conditions should be possible, provided
one always only contrasts one against the other.
Actually, I already got a reply by Mark (which somehow did not make it
on the list): he is travelling at the moment, but they will look into it
very soon.
Cheers
Simon
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