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README.md

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[![CI](https://github.com/sgkit-dev/vcztools/actions/workflows/ci.yml/badge.svg?branch=main)](https://github.com/sgkit-dev/vcztools/actions/workflows/ci.yml)
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[![PyPI Downloads](https://static.pepy.tech/badge/vcztools)](https://pepy.tech/projects/vcztools)
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# vcztools
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Partial reimplementation of bcftools for [VCF Zarr](https://github.com/sgkit-dev/vcf-zarr-spec/)
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```
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vcztools view <path.vcz>
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```
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or
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or
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```
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python -m vcztools view <path.vcz>
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```
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should be equivalent to running
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should be equivalent to running
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```
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bcftools view <path.vcf.gz>
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```
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See the [bio2zarr](https://sgkit-dev.github.io/bio2zarr/) project for help in
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See the [bio2zarr](https://sgkit-dev.github.io/bio2zarr/) project for help in
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converting VCF files to Zarr.
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## Goals
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Vcztools aims to be a drop-in replacement for a subset of bcftools functionality.
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Currently supported are the ``view``, ``query`` and ``index -s/-n`` commands.
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We aim for 100% compatibility so if you notice a difference between the output of
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We aim for 100% compatibility so if you notice a difference between the output of
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vcztools and bcftools please do open an issue.
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## Cloud stores
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## Development
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Vcztools is under active development and contributions are warmly welcomed. Please
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Vcztools is under active development and contributions are warmly welcomed. Please
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see the project on [GitHub](https://github.com/sgkit-dev/vcztools).
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