Question: MaSigPro - pre-filtering of genes
gravatar for GFM
3.6 years ago by
European Union
GFM20 wrote:


I have a question regarding pre-filtering of genes in RNA-Seq data for MaSigPro.

I have filtered out genes that the counts in all samples was low. In some data sets I did not get significant genes. I thought to further filter the data, to keep only genes had a difference above of 1.5 between any 2 samples:
keep only genes with: (max (counts in all samples)/min(counts in all samples) > 1.5

I then managed to get significant genes.
I wanted to ask whether it is a good workflow to have that per-filtering? And if so, would you suggest to do it always, or only in cases that no significant genes are obtained.


masigpro • 487 views
ADD COMMENTlink written 3.6 years ago by GFM20
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 175 users visited in the last hour