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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 634

  2. snakemake-wrappers snakemake-wrappers Public

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

    Python 241 209

  3. snakefmt snakefmt Public

    The uncompromising Snakemake code formatter

    Python 187 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 50 47

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

    A statically generated catalog of available Snakemake workflows

    Python 36 11

Repositories

Showing 10 of 68 repositories
  • 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 2,735 MIT 634 990 (1 issue needs help) 116 Updated Mar 29, 2026
  • snakefmt Public

    The uncompromising Snakemake code formatter

    snakemake/snakefmt’s past year of commit activity
    Python 187 MIT 32 3 3 Updated Mar 28, 2026
  • snakemake-report-plugin-nanopub Public

    Snakemake Report Plugin to automatically create Nanopubs after workflow runs holding all metadata of that workflow

    snakemake/snakemake-report-plugin-nanopub’s past year of commit activity
    Python 1 MIT 0 0 2 Updated Mar 27, 2026
  • 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 0 2 Updated Mar 27, 2026
  • snakemake-wrappers Public

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

    snakemake/snakemake-wrappers’s past year of commit activity
    Python 241 209 8 31 Updated Mar 27, 2026
  • snakemake-lang-vscode-plugin Public

    Language support and snippets for Snakemake workflows (Snakefile, *.smk) for Visual Studio Code and Apache Theia.

    snakemake/snakemake-lang-vscode-plugin’s past year of commit activity
    TypeScript 23 MIT 18 9 0 Updated Mar 27, 2026
  • 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 11 1 0 Updated Mar 27, 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 50 MIT 47 38 3 Updated Mar 26, 2026
  • snakemake-cluster-profiles Public

    The snakemake-profiles repository is an effort to create configuration profiles for executing Snakemake in specific institutional cluster or compute environments. It is meant to complement the executor plugins, which are designed for specifying execution on general architectures such as SLURM, LSF, etc.

    snakemake/snakemake-cluster-profiles’s past year of commit activity
    Shell 1 MIT 2 4 0 Updated Mar 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 0 MIT 6 0 0 Updated Mar 26, 2026
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