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The Snakemake workflow management system is a tool to create reproducible and scalable data analyses. Workflows are described via a human readable, Python based language. They can be seamlessly scaled to server, cluster, grid and cloud environments, without the need to modify the workflow definition. Finally, Snakemake workflows can entail a description of required software, which will be automatically deployed to any execution environment.

Snakemake is highly popular, with >7 new citations per week. For an introduction, please visit

This is the home of the Snakemake API documentation, which is meant purely for developers of snakemake’s internal functionalities. If you are looking for the Snakemake user documentation (for writing workflows or executing them), please visit