Pathway/Gene set z-score from log2FC

Question

[kvshamsudheen]

Is there a way to calculate expression of a pathway/gene sets from DE log2fc?. Ie get the directionality of pathway/gene enrichment analysis instead of traditional enrichment p-values from methods such as cluster profiler.

Answer 1

[Vasu]

you can go with fgsea to do Gene set enrichment analysis. check this tutorial DESeq results to pathways in 60 Seconds with the fgsea package