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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. To get a first impression, see our introductory slides.
Snakemake workflows are essentially Python scripts extended by declarative code to define rules. Rules describe how to create output files from input files. News about Snakemake are published via Twitter. See Citations for more information. In the following you find an incomplete list of publications making use of Snakemake for their analyses.
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