htsjdk icon indicating copy to clipboard operation
htsjdk copied to clipboard

Published 20 hours ago • verified publisher icon samtools

Support the latest Variant Call Format Specification (VCFv4.3 and BCFv2.2)

Open droazen opened this issue 8 years ago • 4 comments

Htsjdk does not currently support VCFv4.3 and BCFv2.2. Is there a volunteer in the community who is interested in taking on the task of adding support for the latest spec?

droazen avatar May 03 '16 20:05 droazen

I could try it, but I would like to have a list of things that should be done for it.

magicDGS avatar May 07 '16 08:05 magicDGS

Any news on supporting VCFv4.3 and BCFv2.2 (both for read and write)?

fgvieira avatar Mar 21 '22 11:03 fgvieira

@fgvieira There is both good news and bad news on the status of this. We have a branch and PR with the 4.3 changes that is ready for review, and another branch with the BCF changes. However, both branches are dependent on another large PR with VCFHeader changes, and all of these are going to require a major release and update of htsjdk. We continue to be backlogged on reviewing these large PRs, so the release timeframe is still unclear, but the bulk of the actual work has been done. Thats about all of the clarity I can provide at this time.

cmnbroad avatar Apr 12 '22 21:04 cmnbroad