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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 680

  2. snakemake-wrappers snakemake-wrappers Public

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

    Python 256 218

  3. snakefmt snakefmt Public

    The uncompromising Snakemake code formatter

    Python 197 32

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

    A Github action for running a Snakemake workflow

    64 14

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

    A Snakemake executor plugin for submitting jobs to a SLURM cluster

    Python 56 62

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

    A statically generated catalog of available Snakemake workflows

    Python 37 12

Repositories

Showing 10 of 75 repositories
  • snakemake-infrastructure-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-infrastructure-profiles's past year of commit activity
    Shell 3 MIT 3 4 0 Updated Nov 14, 2026
  • snakemake-hpc-teaching-material Public
    snakemake/snakemake-hpc-teaching-material's past year of commit activity
    TeX 0 CC-BY-SA-4.0 2 3 2 Updated Nov 13, 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 2,898 MIT 680 997 (1 issue needs help) 144 Updated Nov 13, 2026
  • snakemake-tutorial-data Public

    Example data for the official Snakemake tutorial

    snakemake/snakemake-tutorial-data's past year of commit activity
    Shell 9 25 0 1 Updated Nov 13, 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 256 218 4 58 Updated Nov 13, 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 Nov 10, 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 14 6 3 Updated Nov 6, 2026
  • snakemake-software-deployment-plugin-container Public

    Run snakemake within a rootless container

    snakemake/snakemake-software-deployment-plugin-container's past year of commit activity
    Python 2 MIT 1 1 3 Updated Nov 6, 2026
  • snakemake-interface-common Public

    Common functions and classes for Snakemake and its plugins

    snakemake/snakemake-interface-common's past year of commit activity
    Python 0 MIT 7 6 4 Updated Nov 6, 2026
  • 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 3 MIT 3 2 0 Updated Nov 5, 2026
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