I recently analyzed my RNA-Seq data followed by STAR-HTSeqCount-DESeq2 method and want to run these on GSEA to find correlation with certain pathways. But for the input, should I prerank the genes based on Log2FC or log(p-value) * sign_of_FC. If use the later case, how should I choose the parameter of GSEA? And in all these ranking process, should i use 0.01 as cutoff for p-adj (FDR) to cut off other genes.
Question: DESeq2 followed by GSEA
3.1 years ago by
langya • 90
langya • 90 wrote:
ADD COMMENT • link •
Please log in to add an answer.
Powered by Biostar version 2.3.0
Traffic: 1500 users visited in the last hour