This repository was archived by the owner on Dec 16, 2022. It is now read-only.
This repository was archived by the owner on Dec 16, 2022. It is now read-only.
Support for MAF format #380
Description
It would be convenient if Gamgee had native support for MAF formats.
See https://wiki.nci.nih.gov/display/TCGA/Mutation+Annotation+Format+(MAF)+Specification for more details.
MAF is a TSV format with a single line header, and possible leading comment lines designated with "#"
It differs from VCF in that it reports a single mutation per line rather than a single site. It also reports INDEL sites differently than VCF, so it's not an entirely trivial stacking operation to convert one to another.