Hello, Everyone !!
I have an easy one , I am sure I am missing something here. I am trying to merge a number of vcf files to one large vcf, utilising bcfttools merge.
the command I used is following
where is Samples is the list of vcf files as A.vcf.gz B.vcf.gz ,, etc)
$> bcftools merge --force-samples -l Sample > Meged.vcf.gz
the error I got is :
[W::bcf_hdr_check_sanity] GL should be declared as Number=G Warning: trying to combine "GQ" tag definitions of different types Error at chrM:309: wrong number of fields in CIGAR?