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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 240 208

  3. snakefmt snakefmt Public

    The uncompromising Snakemake code formatter

    Python 183 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 37 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 2,730 MIT 634 1,075 (1 issue needs help) 123 Updated Mar 20, 2026
  • snakemake-interface-logger-plugins Public
    snakemake/snakemake-interface-logger-plugins’s past year of commit activity
    Python 8 MIT 2 3 3 Updated Mar 20, 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 240 208 8 28 Updated Mar 20, 2026
  • snakefmt Public

    The uncompromising Snakemake code formatter

    snakemake/snakefmt’s past year of commit activity
    Python 183 MIT 32 4 2 Updated Mar 20, 2026
  • snakemake-scheduler-plugin-firstfit Public

    A Snakemake scheduler plugin that selects the first jobs that fit available resources.

    snakemake/snakemake-scheduler-plugin-firstfit’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Mar 19, 2026
  • snakemake-scheduler-plugin-milp Public

    A Snakemake scheduler plugin using Mixed-Integer Linear Programming (MILP).

    snakemake/snakemake-scheduler-plugin-milp’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Mar 19, 2026
  • snakemake-scheduler-plugin-greedy Public

    A greedy Snakemake scheduler plugin.

    snakemake/snakemake-scheduler-plugin-greedy’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Mar 19, 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 40 6 Updated Mar 18, 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 0 MIT 2 4 1 Updated Mar 18, 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 1 Updated Mar 18, 2026
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