Clarification regarding p-value adjustment. #1958
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dkgrf
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Hello,
I was looking at your source code in an attempt to export the raw p-values during the
peakAnnoEnrichment()
step and I came across this adjustment to the - log10 p-value being performed here in the.computeEnrichment()
function. I would appreciate it if you could prove some insight into what method of p-value adjustment is being utilized here. https://github.com/GreenleafLab/ArchR/blob/c61b0645d1482f80dcc24e25fbd915128c1b2500/R/AnnotationPeaks.R#L1120pOut$mlog10Padj <- pmax(pOut$mlog10p - log10(ncol(pOut)), 0)
Thank you.
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