[Biopython-dev] Fwd: [VCFtools-spec] The BCF2 quick reference document is up on the 1000G wiki

Peter Cock p.j.a.cock at googlemail.com
Sun Jul 8 19:06:03 UTC 2012

This could be important for Lenna's GSoC project.

Heng Li had developed the original binary VCF format,
BCF, but IIRC he wasn't keen to push it as a standard -
see also http://vcftools.sourceforge.net/specs.html and

It looks like BCF2 could be more widely used...


---------- Forwarded message ----------
From: Eric Banks <ebanks at broadinstitute.org>
Date: Thu, Jul 5, 2012 at 5:38 PM
Subject: [VCFtools-spec] The BCF2 quick reference document is up on
the 1000G wiki
To: "1000ANALYSIS at LIST.NIH.GOV" <1000ANALYSIS at list.nih.gov>,
"vcftools-spec at lists.sourceforge.net"
<vcftools-spec at lists.sourceforge.net>

  Hi everyone,

At the last 1000G meeting we discussed BCF2, the official binary version
of VCF.  The quick reference guide for BCF2 is now linked from the main
VCF page on the 1000G wiki; you can access it directly here:

I take no credit for the document itself, which is really the work of
Heng and Mark.  At this point, both the GATK and samtools can produce
BCF files (and they will soon become our standard output format).  We
encourage other producers of VCF to consider moving over to BCF2 too.


Eric Banks, PhD
Broad Institute of Harvard and MIT
ebanks at broadinstitute.org

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