https://github.com/snakemake-workflows/dna-seq-varlociraptor

A Snakemake workflow for calling small and structural variants under any kind of scenario (tumor/normal, tumor/normal/relapse, germline, pedigree, populations) via the unified statistical model of Varlociraptor.
https://github.com/snakemake-workflows/dna-seq-varlociraptor

genomic-variant-calling reproducibility sciworkflows snakemake varlociraptor

Last synced: 9 days ago
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A Snakemake workflow for calling small and structural variants under any kind of scenario (tumor/normal, tumor/normal/relapse, germline, pedigree, populations) via the unified statistical model of Varlociraptor.

• Host: GitHub
• URL: https://github.com/snakemake-workflows/dna-seq-varlociraptor
• Owner: snakemake-workflows
• License: mit
• Created: 2020-01-17T10:34:54.000Z (over 6 years ago)
• Default Branch: master
• Last Pushed: 2026-02-08T01:02:31.000Z (4 months ago)
• Last Synced: 2026-02-08T09:19:00.377Z (4 months ago)
• Topics: genomic-variant-calling, reproducibility, sciworkflows, snakemake, varlociraptor
• Language: Python
• Homepage:
• Size: 17.9 MB
• Stars: 88
• Watchers: 6
• Forks: 46
• Open Issues: 29
• Metadata Files:
  • Readme: README.md
  • Changelog: CHANGELOG.md
  • License: LICENSE

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README

          
# Snakemake workflow: dna-seq-varlociraptor

[![Snakemake](https://img.shields.io/badge/snakemake-≥6.3.0-brightgreen.svg)](https://snakemake.github.io)

[![GitHub actions status](https://github.com/snakemake-workflows/dna-seq-varlociraptor/workflows/Tests/badge.svg?branch=master)](https://github.com/snakemake-workflows/dna-seq-varlociraptor/actions?query=branch%3Amaster+workflow%3ATests)

[![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.4675661.svg)](https://doi.org/10.5281/zenodo.4675661)

A Snakemake workflow for calling small and structural variants under any kind of scenario (tumor/normal, tumor/normal/relapse, germline, pedigree, populations) via the unified statistical model of [Varlociraptor](https://varlociraptor.github.io).

## Usage

The usage of this workflow is described in the [Snakemake Workflow Catalog](https://snakemake.github.io/snakemake-workflow-catalog/?usage=snakemake-workflows%2Fdna-seq-varlociraptor).

If you use this workflow in a paper, don't forget to give credits to the authors by citing the URL of this (original) repository and its DOI (see above).