[BioC] which dispersion to choose
k.ruprecht at gmx.ch
Mon Jan 27 12:23:27 CET 2014
I'd like to use edgeR to find differently expressed genes in my RNAseq data. My question is which dispersion I should use.
In a forum I read that moderate tagwise dispersion ranks more highly the DE genes which are consistent in their group - which is what I am looking for.
How can I achive "moderate" tagwise dispersion or could I use trended dispersion instead?
My data consists of 18 libraries with 3 treatments (6 libraries each). In these treatments I have 2 groups of 3 libraries each which are not exactly replicates but should behave similarly.
I want to test mainly for differences between the groups in each treatment.
Thanks for your Help!
Plant ecological genetics
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