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Snakemake

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  1. snakemake snakemake Public

    This is the development home of the workflow management system Snakemake. For general information, see

    Python 2.6k 613

  2. snakemake-wrappers snakemake-wrappers Public

    This is the development home of the Snakemake wrapper repository, see

    Python 237 203

  3. snakefmt snakefmt Public

    The uncompromising Snakemake code formatter

    Python 180 32

  4. snakemake-github-action snakemake-github-action Public

    A Github action for running a Snakemake workflow

    61 15

  5. snakemake-executor-plugin-slurm snakemake-executor-plugin-slurm Public

    A Snakemake executor plugin for submitting jobs to a SLURM cluster

    Python 42 38

  6. snakemake-workflow-catalog snakemake-workflow-catalog Public

    A statically generated catalog of available Snakemake workflows

    Python 35 10

Repositories

Showing 10 of 63 repositories
  • snakemake-workflow-catalog Public

    A statically generated catalog of available Snakemake workflows

    snakemake/snakemake-workflow-catalog’s past year of commit activity
    Python 35 MIT 10 2 0 Updated Nov 17, 2025
  • snakemake-wrappers Public

    This is the development home of the Snakemake wrapper repository, see

    snakemake/snakemake-wrappers’s past year of commit activity
    Python 237 203 14 36 Updated Nov 17, 2025
  • snakemake-executor-plugin-slurm Public

    A Snakemake executor plugin for submitting jobs to a SLURM cluster

    snakemake/snakemake-executor-plugin-slurm’s past year of commit activity
    Python 42 MIT 38 40 9 Updated Nov 17, 2025
  • snakemake Public

    This is the development home of the workflow management system Snakemake. For general information, see

    snakemake/snakemake’s past year of commit activity
    Python 2,640 MIT 613 1,130 (1 issue needs help) 91 Updated Nov 13, 2025
  • snakemake-github-action Public

    A Github action for running a Snakemake workflow

    snakemake/snakemake-github-action’s past year of commit activity
    61 MIT 15 4 2 Updated Nov 12, 2025
  • snakemake-executor-plugin-slurm-jobstep Public

    A Snakemake executor plugin for running srun jobs inside of SLURM jobs (meant for internal use by snakemake-executor-plugin-slurm)

    snakemake/snakemake-executor-plugin-slurm-jobstep’s past year of commit activity
    Python 0 MIT 3 0 0 Updated Nov 10, 2025
  • snakemake-executor-plugin-kubernetes Public

    A snakemake executor plugin for submission of jobs to Kubernetes

    snakemake/snakemake-executor-plugin-kubernetes’s past year of commit activity
    Python 4 MIT 11 2 5 Updated Nov 10, 2025
  • snakedeploy Public

    deploy a snakemake pipeline directly from version control (under development)

    snakemake/snakedeploy’s past year of commit activity
    Python 23 MPL-2.0 13 14 5 Updated Nov 7, 2025
  • snakemake-hpc-teaching-material Public
    snakemake/snakemake-hpc-teaching-material’s past year of commit activity
    TeX 0 CC-BY-SA-4.0 2 1 0 Updated Nov 5, 2025
  • snakemake-interface-report-plugins Public

    The interface for Snakemake report plugins.

    snakemake/snakemake-interface-report-plugins’s past year of commit activity
    Python 4 MIT 2 2 0 Updated Oct 31, 2025
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