This is a test version of Biostars. For the public version, visit https://www.biostars.org.
Performing GO analysis from Differential Peaks

Hello everyone, I called for FindMarkers() in order to find differential peaks between two biological conditions and the following was output ("diff.peaks").

My question is how would I generate a nice chart for GO analysis from this? My current code is:

install.packages("JASPAR2022")
library(JASPAR2022)
library(JASPAR2020)
library(clusterProfiler)

    go_enrichment <- enrichGO(diff.peaks, universe = rownames(exc_subset),
                          OrgDb = "org.Mm.eg.db", keyType = "GENEID",
                          ont = "BP", pvalueCutoff = 0.05, qvalueCutoff = 0.05)

enter image description here

The following image is what I have. No q-value, so how would I change the parameters of "go_enrichment" to successfully carry this out?

clusterprofiler signac analysis atac-seq go

0 answers

No answers yet.

Log in to answer this question.