decoupleR & Transcription Factory Activity Inference: pvalue or padj?
0
0
Entering edit mode
19 months ago
OST ▴ 10

Hello! I recently came across decoupleR for transcription factor activity inference in bulk RNA-seq (https://www.bioconductor.org/packages/release/bioc/vignettes/decoupleR/inst/doc/tf_bk.html).

I was wondering why do they use p-values, as opposed to adjusted pvalues, in their analysis of inferring infer pathway activities from the t-values of the DEGs between KO and WT? Is there a specific reason to use raw (unadjusted) pvalues in this context?

Thanks!

pvalue padj decoupleR • 744 views
ADD COMMENT
0
Entering edit mode

Did you find an answer? I’m wondering about the same issue too.

I am specifically interested in p values generated from run_consensus , run_ulm , run_mlm etc.

ADD REPLY

Login before adding your answer.

Traffic: 3620 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6