DavidStreid issues

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                                            DavidStreid

bamutil diff - Get record for every read being compared

Hi, I am wondering if I am using the tool correctly. Will there be a record for every `QNAME` in the bams being compared when comparing `MAPQ` scores? I am...

Makefile - update BamTools to compile

Hi, I'm failing to compile lumpy-sv using the README instructions, specifically the BamTools utils. Would it be possible to update the Makefile for updated instructions to compile BamTools? It seems...

MergeVcfs and SortVcf lose NULL sample values when SAMPLEs in headers need to be reordered

Hi, I ran into an issue where `gatk MergeVcfs` does not preserve NULL (`.`) SAMPLE values in the output VCF. This only seems to happen when the SAMPLES are not...