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@snakemake

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 586

  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 161 29

  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
  • poetry-snakemake-plugin Public

    Plugin for poetry that adds snakemake specific functionality

    Python 5 1 0 0 Updated Mar 26, 2025
  • snakemake Public

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

    Python 2,434 MIT 586 1,092 (1 issue needs help) 88 Updated Mar 26, 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
  • snakemake-interface-executor-plugins Public

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

    Python 9 MIT 12 8 1 Updated Mar 26, 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 0 Updated Mar 26, 2025
  • snakemake-storage-plugin-xrootd Public

    A Snakemake storage plugin for handling input and output via XRootD

    Python 1 MIT 3 2 1 Updated Mar 25, 2025
  • snakemake-executor-plugin-slurm Public

    A Snakemake executor plugin for submitting jobs to a SLURM cluster

    Python 31 MIT 24 31 7 Updated Mar 24, 2025
  • snakemake-storage-plugin-irods Public

    Snakemake storage plugin for handling input and output on iRODS

    Python 0 MIT 3 1 0 Updated Mar 24, 2025
  • snakemake-storage-plugin-sftp Public

    A Snakemake storage plugin that handles files on an SFTP server.

    Python 0 MIT 3 1 0 Updated Mar 24, 2025
  • snakemake-storage-plugin-ftp Public

    A Snakemake storage plugin that handles files and directories on an FTP server

    Python 0 MIT 0 0 0 Updated Mar 24, 2025
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