Bugfixes:
- removed arguments from CollectHsMetrics that were causing problems with the GenderCheck.sh
- replacing missing backslash before a quote in some header lines of a vcf (Gavin.sh)
- searching in the wrong column for "MEAN_TARGET_COVERAGE" in the GenderCheck.sh
- searching in a different folder for the qc files in ProcessDragenTrendAnalysis.sh
Added:
- missing bedfile annotation in the header of a vcf (MergeBatches.sh & ReheaderVCF.sh)
- ConcordanceCheck SNPs
Updated:
- Gavin standalone script & startFromVcf.sh