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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 2.4k 587

  2. snakemake-wrappers snakemake-wrappers Public

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

    Python 219 191

  3. snakefmt snakefmt Public

    The uncompromising Snakemake code formatter

    Python 162 30

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

    A Github action for running a Snakemake workflow

    58 12

  5. snakemake-workflow-catalog snakemake-workflow-catalog Public

    A statically generated catalog of available Snakemake workflows

    Python 32 10

  6. snakemake-executor-plugin-slurm snakemake-executor-plugin-slurm Public

    A Snakemake executor plugin for submitting jobs to a SLURM cluster

    Python 31 24

Repositories

Showing 10 of 59 repositories
  • snakemake Public

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

    Python 2,435 MIT 587 1,094 (1 issue needs help) 89 Updated Mar 30, 2025
  • snakefmt Public

    The uncompromising Snakemake code formatter

    Python 162 MIT 30 16 1 Updated Mar 28, 2025
  • snakemake-executor-plugin-slurm Public

    A Snakemake executor plugin for submitting jobs to a SLURM cluster

    Python 31 MIT 24 32 7 Updated Mar 28, 2025
  • snakemake-software-deployment-plugin-conda Public

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

    Python 0 0 1 2 Updated Mar 28, 2025
  • snakemake-wrappers Public

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

    Python 219 191 22 30 Updated Mar 28, 2025
  • snakemake-interface-common Public

    Common functions and classes for Snakemake and its plugins

    Python 0 MIT 4 1 2 Updated Mar 27, 2025
  • snakemake-interface-executor-plugins Public

    This package provides a stable interface for interactions between Snakemake and its executor plugins.

    Python 10 MIT 12 8 1 Updated Mar 27, 2025
  • snakemake-storage-plugin-fs Public

    A Snakemake storage plugin that reads and writes from a locally mounted filesystem using rsync.

    Python 2 MIT 4 5 1 Updated Mar 27, 2025
  • snakemake-executor-plugin-ssh Public

    An experimental Snakemake remote executor plugin that only requires ssh

    Python 1 0 0 0 Updated Mar 26, 2025
  • poetry-snakemake-plugin Public

    Plugin for poetry that adds snakemake specific functionality

    Python 5 1 0 0 Updated Mar 26, 2025
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