vcfsyncer 1.0.5

Package to synchronize multiple VCFs

vcfsyncer: A package to synchronize multiple VCFs

This is a way to transparently use single sample VCFs as if they were a multi-sample VCF.

Installation

The simplest way to install vcfsyncer is through pip:

pip install vcfsyncer

Usage

Use vcfsyncer within a python environment

from vcfsyncer import VCFSyncer

synced = VCFSyncer(PATH_A, PATH_B, PATH_C)

# you can iterate through the synchronized VCFs
for var in synced:
    print(var.chrom, var.pos)

# alternatively, fetch regions from the synchronized VCFs (if tabix-indexed)
for var in synced.fetch(chrom='1', start=1000000, end=2000000):
    print(var.chrom, var.pos)