Partial reimplementation of bcftools for VCF Zarr
Please see the preprint for more information.
python3 -m pip install vcztools
vcztools view <path.vcz>
or
python -m vcztools view <path.vcz>
should be equivalent to running
bcftools view <path.vcf.gz>
See the bio2zarr project for help in converting VCF files to Zarr.
Vcztools aims to be a drop-in replacement for a subset of bcftools functionality.
Currently supported are the view, query and index -s/-n commands.
We aim for 100% compatibility so if you notice a difference between the output of vcztools and bcftools please do open an issue.
Vcztools is under active development and contributions are warmly welcomed. Please see the project on GitHub.