edgeR: How important is the FDR value?
Hi,
I was wondering if any one can answer my question about FDR
How exactly we should determine the cutoff limit for FDR value? Is 0.1 acceptable or 0.2? Because the number of significantly expressed genes changes dramatically even for slightest changes in FDR value. For a Publication, how much FDR is a good FDR?
If I select P.value < 0.05 and ignore FDR, I am getting around 200 differentially expressed genes. But If I use FDR <0.085 along with P value <0.05, the number drops to 65. can we publish without FDR?
Thanks in advance.
