I am attempting to use GangSTR-2.5.0 and ive encountered a strange issue where the REF and ALT alelles in the output VCF are being reported as numbers rather than bases. i.e.
CHROM POS ID REF ALTcontig_1556 733473 . 7.57.57.57.57.57.57.5 7.57.57.57.57.5contig_1794 304015 . 16161616161616161616161616161616 161616
This is the same for the repeat motif info field as well, for example for the above 2 positions:
RU=7.5RU=16
Any suggestions on what might be causing this and how to get around it?
Hi,
I am attempting to use GangSTR-2.5.0 and ive encountered a strange issue where the REF and ALT alelles in the output VCF are being reported as numbers rather than bases. i.e.
CHROM POS ID REF ALTcontig_1556 733473 . 7.57.57.57.57.57.57.5 7.57.57.57.57.5contig_1794 304015 . 16161616161616161616161616161616 161616This is the same for the repeat motif info field as well, for example for the above 2 positions:
RU=7.5RU=16Any suggestions on what might be causing this and how to get around it?
Cheers, Alex