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Published 20 hours ago • verified publisher icon brentp

Describe Handling of Alternate Contigs in User Guide

Open DarioS opened this issue 4 years ago • 1 comments

I like to see a section in the user guide how alignments to hg38 and alternate contigs are handled. We have used bwakit's version of the reference genome with alternates, HLA alleles and decoys.

DarioS avatar Jun 12 '20 07:06 DarioS

mosdepth just calculates depth in the alignments as they are given regardless of if they are in HLA or no.

brentp avatar Jun 12 '20 13:06 brentp