From 8ab584cb1541d1e1ae5088f3a601bce948596eb9 Mon Sep 17 00:00:00 2001
From: AHDemiG1 <ahdemig1@SRV018.img.med.uni-tuebingen.de>
Date: Wed, 5 Oct 2022 15:00:24 +0200
Subject: [PATCH] Closing an issue from Marc: hg38 mode, noPlot mode, reduce
 the number of required females for PAR region calling

---
 germline/helpersGermline.R | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/germline/helpersGermline.R b/germline/helpersGermline.R
index 334e821..ea1e2a7 100755
--- 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")