The Variant Call Format Kit is a collection of tools useful for performing a variety of analyses and operations on variant data stored using the Variant Call Format. VCF-kit is open source and community contributions are encouraged.

VCF-kit is open source and is licensed under the MIT License. We welcome community contributions.


VCF-kit can be installed using pip:

pip install numpy # You may need to install numpy independently.
pip install VCF-kit

Installing Dependencies:

vk setup

vk setup uses homebrew (or if on linux, linux-brew) to install programs used by VCF-kit:

  • bwa
  • samtools
  • bcftools
  • blast
  • muscle