Forum: Tools to check if the user defined pathway is enriched in the data

Dear Biostars,

I am doing RNA-Seq analysis of mouse cells. I have identified DEGs using DESeq2 and did gene set enrichment analysis using fgsea package.

Here I want to check if a user defined pathway(my favorite genes to be correct) is enriched in my treatment samples. Can you please advise me any tools to perform this ? I did quite a bit of searching, but could not find one yet.

I greatly appreciate your kind help.

Regards,
Aynur

rna-seq sequencing r

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updated 3.4 years ago by Ram

• written 5.4 years ago by Aynur •

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