BGI-lowpass bam quality control
usage: java -jar bamqc.jar [-c] [-h] -i <FILE> [-o <String>] -s <FILE>
Options:
-c,--countSecondaryReads The secondary alignment reads are counted and ignored by default [false]
-h,--help Print this help.
-i,--input <FILE> input bam(BAM). [request]
-o,--output <String> report file [request]
-s,--site <FILE> reference panel site.vcfs list [request]