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snakemake

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snakemake

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

snakemake-wrappers

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

snakefmt

The uncompromising Snakemake code formatter

snakemake-github-action

A Github action for running a Snakemake workflow

snakemake-workflow-catalog

A statically generated catalog of available Snakemake workflows

snakedeploy

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

snakemake-lang-vscode-plugin

Language support and snippets for Snakemake workflows (Snakefile, *.smk) for Visual Studio Code and Apache Theia.

snakeface

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

snakemake-executor-plugin-slurm

A Snakemake executor plugin for submitting jobs to a SLURM cluster

snakemake-tutorials

start of repository with various snakemake tutorials (under development)

snakemake-hpc-teaching-material

snakemake-tutorial-data

Example data for the official Snakemake tutorial

shournal-to-snakemake

snakemake-executor-plugin-aws-batch

A Snakemake executor plugin for AWS Batch

snakemake-spack-tutorial

The snakemake tutorial run with spack! (under development)

snakemake.github.io

Snakemake homepage

snakemake-executor-plugin-azure-batch

A Snakemake executor plugin for submitting jobs to Microsoft Azure Batch.

snakedeploy-github-action

A github action for using snakedeploy