decoupleR & Transcription Factory Activity Inference: pvalue or padj?
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15 months ago
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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 • 482 views
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