snakemake Repositories

deploy a snakemake pipeline directly from version control (under development)

Last commit Jun 1, 2026

(25 stars) (13 forks) (0 indexed issues) (0 open good first issues)

The snakemake interface, currently works like a notebook (under development)

Last commit Dec 30, 2021

(20 stars) (6 forks) (0 indexed issues) (0 open good first issues)

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

Last commit Nov 10, 2023

(1,973 stars) (477 forks) (2 indexed issues) (2 open good first issues)

Snakemake custom executor plugin for Flux Framework (under development)

Last commit Sep 7, 2024

(1 star) (2 forks) (0 indexed issues) (0 open good first issues)

Snakemake executor plugin for Google Batch

Last commit Jan 1, 2026

(6 stars) (11 forks) (0 indexed issues) (0 open good first issues)

A Snakemake executor plugin to enable running jobs with Kueue on Kubernetes

Last commit Mar 21, 2024

(6 stars) (2 forks) (0 indexed issues) (0 open good first issues)

An example documentation site for a plugin using snakemake-plugin-docs-jekyll

Last commit Aug 15, 2023

(0 stars) (0 forks) (0 indexed issues) (0 open good first issues)

Jekyll template for snakemake plugins (under development)!

Last commit Aug 15, 2023

(0 stars) (0 forks) (0 indexed issues) (0 open good first issues)

The snakemake tutorial run with spack! (under development)

Last commit Aug 17, 2021

(4 stars) (2 forks) (0 indexed issues) (0 open good first issues)

A Snakemake storage plugin for Google Cloud Storage

Last commit Mar 24, 2025

(4 stars) (8 forks) (0 indexed issues) (0 open good first issues)

start of repository with various snakemake tutorials (under development)

Last commit Mar 25, 2020

(5 stars) (2 forks) (0 indexed issues) (0 open good first issues)

snakemake repositories