PASS flag for SNP and VCF header
fritzsedlazeck opened this issue · 2 comments
fritzsedlazeck commented
For certain applications it would be helpful to provide a PASS flag for trustworthy SNPs.
Also please consider to extend the VCF header with e.g. chromosome names and length.
Thanks
Fritz
aquaskyline commented
No problem. Will add a function for adding the PASS flag and headers.
aquaskyline commented
add contig tags in header; add PASS and LowQual filter tag if --qual is set for callVarBamParallel.py or callVarBam.py