pipemake

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pipemake#

pipemake is a lightweight, flexible, and easy-to-use tool for creating and managing Snakemake pipelines. It was designed with three primary goals:

  1. Offer a collection of curated, customizable genomic analysis pipelines for researchers seeking to rapidly integrate Snakemake-based workflows into their research.

  2. Optimize computational efficiency and reproducibility by fully operating in the Snakemake ecosystem.

  3. Streamline development by creating a flexible platform with swappable pipelines that easily reuse previously written Snakemake code.

Getting pipemake#

mamba#

mamba create -c conda-forge -c bioconda -c kocherlab -n pipemake pipemake

For more information, see the Installation Instructions.

Issues#

  1. Check the docs.

  2. Search the issues on GitHub or open a new one.

Contributors#

  • Andrew Webb, Department of Ecology and Evolutionary Biology, Lewis-Sigler Institute for Integrative Genomics, Princeton University, Howard Hughes Medical Institute, Chevy Chase, MD, USA

  • Scott Wolf, Research Computing, Princeton University, Princeton, NJ, USA

  • Ian M Traniello, Department of Ecology and Evolutionary Biology and Lewis-Sigler Institute for Integrative Genomics, Princeton University

  • Sarah Kocher, Department of Ecology and Evolutionary Biology, Lewis-Sigler Institute for Integrative Genomics, Princeton University, Howard Hughes Medical Institute, Chevy Chase, MD, USA

License#

Pipemake is licensed under the MIT license. See the LICENSE file for details.

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