I still don't know, I just used the Audic-Claverie algorithm instead, so for the time being I hope that will be enough for my task.
The parameters that I used for DESeq were as follows:
p-value threshold =0.01
log2 fold change is ≥ 1
the two samples tested were without replicates.
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could you post what the reason was for observing zero differentially expressed genes?
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DEseq: zero differentially expressed regions found
Hello,
I am running DEseq for the first time.
With the default parameters, it returned zero differentially expressed regions.
Are there any known caveats?
Thanks!
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