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hall-lab / svtyper

Bayesian genotyper for structural variants
MIT License
125 stars 55 forks source link

VCF header preservation #17

Closed cc2qe closed 7 years ago

cc2qe commented 8 years ago

Pervasive bug in svtyper and several scripts that removes unrecognized header info (FILTER, weird ##GATKCommandLine= stuff, etc).

Need to be more permissive in header fields, while preventing duplication of header info IDs.

cc2qe commented 7 years ago

https://github.com/cc2qe/svtyper/commit/48a4d4e22037b1dcf2c87d3f17fcba97f430bdff