Closing an issue from Marc: hg38 mode, noPlot mode, reduce the number…

… of required females for PAR region calling
imgag · Oct 5, 2022 · 8ab584c · 8ab584c
1 parent 18972d6
commit 8ab584c
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/germline/helpersGermline.R b/germline/helpersGermline.R
@@ -771,7 +771,7 @@ calculateLocationAndScale <- function(bedFile, coverage, genderOfSamples, autoso
     whichSamplesUsed = 1:ncol(coverage)
     coveragesToDealWith = coverage.normalised[which(bedFile[,1] == chrom),]
     if (chrom == "chrX") {
-      if (length(which(genderOfSamples == "F")) > 0.3 * length(which(genderOfSamples == "M"))) {
+      if (length(which(genderOfSamples == "F")) > 0.4 * length(which(genderOfSamples == "M"))) {
         whichSamplesUsed = which(genderOfSamples == "F")
       } else {
         whichSamplesUsed = which(genderOfSamples == "M")