BSD Ports

wip/vcf-split 0.1.5.19 NetBSD

Split a multi-sample VCF into single-sample VCFs

System
NetBSD
Repository
pkgsrc-wip
Maintainer
[email protected]
License
2-clause-bsd
Categories
wip, biology

Description

Vcf-split splits a multi-sample VCF into single-sample VCFs, writing thousands of output files simultaneously. Parsing the TOPMed human chromosome 1 BCF with bcftools takes two days, so extracting the 137,977 samples one at a time or using thousands of parallel readers of the same file is impractical. Vcf-split solves this by generating thousands of single-sample outputs during a single sweep through the multi-sample input.

In the other systems

SystemPortVersion
NetBSDwip/vcf-split0.1.5.19
FreeBSDbiology/vcf-split0.1.5.10_1
DragonFlybiology/vcf-split0.1.5.10_1
HardenedBSDbiology/vcf-split0.1.5.10_1
GhostBSDbiology/vcf-split0.1.5.10_1

Install

From pkgsrc-wip (no binary package):

cd /usr/pkgsrc/wip/vcf-split && make install clean

Dependencies

Run dependencies 1

No port depends on this one.