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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 2.7k 616

  2. snakemake-wrappers snakemake-wrappers Public

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

    Python 237 202

  3. snakefmt snakefmt Public

    The uncompromising Snakemake code formatter

    Python 181 32

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

    A Github action for running a Snakemake workflow

    62 15

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

    A Snakemake executor plugin for submitting jobs to a SLURM cluster

    Python 43 40

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

    A statically generated catalog of available Snakemake workflows

    Python 36 10

Repositories

Showing 10 of 63 repositories
  • 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 43 MIT 40 40 7 Updated Nov 28, 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 237 202 14 39 Updated Nov 28, 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 2,650 MIT 616 1,131 (1 issue needs help) 82 Updated Nov 27, 2025
  • snakedeploy Public

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

    snakemake/snakedeploy’s past year of commit activity
    Python 24 MPL-2.0 13 14 5 Updated Nov 26, 2025
  • snakemake-workflow-catalog Public

    A statically generated catalog of available Snakemake workflows

    snakemake/snakemake-workflow-catalog’s past year of commit activity
    Python 36 MIT 10 2 0 Updated Nov 25, 2025
  • snakemake-plugin-catalog Public

    An automatically updated catalog of Snakemake plugins and their documentation

    snakemake/snakemake-plugin-catalog’s past year of commit activity
    Python 3 MIT 6 1 2 Updated Nov 19, 2025
  • snakemake-scheduler-plugin-firstfit Public

    A Snakemake scheduler plugin that selects the first jobs that fit available resources.

    snakemake/snakemake-scheduler-plugin-firstfit’s past year of commit activity
    Python 0 MIT 1 0 1 Updated Nov 18, 2025
  • snakemake-github-action Public

    A Github action for running a Snakemake workflow

    snakemake/snakemake-github-action’s past year of commit activity
    62 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 4 0 1 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
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