[BioC] DESeq - working with more than 2 conditions
nsahgal at well.ox.ac.uk
Thu Sep 13 10:46:27 CEST 2012
You could try to use the edgeR package (and the glm method within it).
Also, if I am not mistaken, you could use DESeq but you have to use the glm method there.
Hope that helps,
From: bioconductor-bounces at r-project.org [mailto:bioconductor-bounces at r-project.org] On Behalf Of Vincenzo Capece
Sent: 13 September 2012 07:53
To: bioconductor at r-project.org
Subject: [BioC] DESeq - working with more than 2 conditions
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
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.
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