high number of DEGs detected using EBSeq-HMM
Hi,
I'm using EBSeq-HMM to find DE genes. The problem is among 17611 genes, 16139 genes are identified as DE which is very unusual.
My cutoff to filter genes out before detecting DE genes was to discard all those genes without at least 5 reads in at least one sample.
Do you think my result is ok?
Do you think I should use a more strict cutoff to filter genes before detecting DE genes?
Thanks a lot
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Hello natalia.fghf!
It appears that your post has been cross-posted to another site: https://support.bioconductor.org/p/92760/
This is typically not recommended as it runs the risk of annoying people in both communities.
Hi
Yeah I'm sorry
I didn't know where I should ask my question. I can delete any of them. Which one is at its right place?
Since EBSeq-HMM is a bioconductor package probably bioconductor support is the most appropriate place.
Oh ok. I can't delete my post here. If you're the admin, would you please do it? Sorry