Kimmo Palin

Second this and would implement is as bed file for exclusion regions. Also reporting a documentation bug: --problematic parameter takes a bed file, not "pipe-delimited list of regions"

Haven't tried. That should work but would smoothen the gc percentages fairly drastically. My current plan for workaround is to work with goleft indexcov https://github.com/brentp/goleft Valeriu Ohan kirjoitti ti 19....

It is a bit of a pain to adjust the few troublesome SNPs (12 at this case) but here it is [sites.chm13v2.rna.vcf.gz](https://github.com/brentp/somalier/files/9980280/sites.chm13v2.rna.vcf.gz) The troublesome sites (deleted in T2T assembly) are...