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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 2.9k 660

  2. snakemake-wrappers snakemake-wrappers Public

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

    Python 255 215

  3. snakefmt snakefmt Public

    The uncompromising Snakemake code formatter

    Python 196 32

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

    A Github action for running a Snakemake workflow

    64 15

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

    A Snakemake executor plugin for submitting jobs to a SLURM cluster

    Python 56 57

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

    A statically generated catalog of available Snakemake workflows

    Python 37 12

Repositories

Showing 10 of 74 repositories
  • snakemake-report-plugin-rocrate Public

    Snakemake Report Plugin to automatically create Workflow Run RO-Crate after workflow runs holding all metadata of that workflow

    snakemake/snakemake-report-plugin-rocrate's past year of commit activity
    Python 2 MIT 1 0 2 Updated Sep 30, 2026
  • snakemake-storage-plugin-rucio Public

    A Snakemake storage plugin that handles files available through Rucio.

    snakemake/snakemake-storage-plugin-rucio's past year of commit activity
    Python 0 Apache-2.0 0 0 1 Updated Sep 30, 2026
  • 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 4 MIT 10 1 3 Updated Sep 29, 2026
  • 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 2,881 MIT 660 990 (1 issue needs help) 115 Updated Sep 29, 2026
  • snakemake-software-deployment-plugin-conda Public

    A Snakemake software deployment plugin for using conda packages. Implemented using py-rattler.

    snakemake/snakemake-software-deployment-plugin-conda's past year of commit activity
    Python 2 1 2 5 Updated Sep 29, 2026
  • snakedeploy Public

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

    snakemake/snakedeploy's past year of commit activity
    Python 27 MPL-2.0 14 14 4 Updated Sep 28, 2026
  • 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 56 MIT 57 39 7 Updated Sep 28, 2026
  • snakemake-workflow-catalog Public

    A statically generated catalog of available Snakemake workflows

    snakemake/snakemake-workflow-catalog's past year of commit activity
    Python 37 MIT 12 2 (1 issue needs help) 0 Updated Sep 28, 2026
  • snakemake-executor-plugin-aws-batch Public

    A Snakemake executor plugin for AWS Batch

    snakemake/snakemake-executor-plugin-aws-batch's past year of commit activity
    Python 12 MIT 13 6 11 Updated Sep 26, 2026
  • 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 1 MIT 9 2 6 Updated Sep 25, 2026
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