[BioC] DESeq - working with more than 2 conditions

[Wolfgang Huber]

Dear Vincenzo

please have a look at Section 4 of the DESeq vignette.

	Best wishes
	Wolfgang

On 9/13/12 8:53 AM, Vincenzo Capece wrote:
> Dear all,
> I am a R beginner and I hope you can help me.
> I have a question about DESeq: DESeq works fine if I have 2
> conditions(treated,untreated)
> Example:
>                                            treated   untreated
> ENSMUSG00000000001      193     254
> ENSMUSG00000000003      0       0
> ENSMUSG00000000028      10      13
> ENSMUSG00000000031      0       4
> ENSMUSG00000000037      8       9
> ENSMUSG00000000049      6       8
> ...
> ...
> ...
>
>
> but if I have data about more than two conditions, for instance
> 1-month-treated,3-months-treatead, 6-months-treated,untreated, can I use
> DESeq? If not, Which R package (if it exists)do you suggest to use?
>
> Thanks in advance.
> Regards.
>
> 	[[alternative HTML version deleted]]
>
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-- 
Best wishes
	Wolfgang

Wolfgang Huber
EMBL
http://www.embl.de/research/units/genome_biology/huber