snakemake

pythonic workflow management system

Install

All systems
curl cmd.cat/snakemake.sh
Debian Debian
apt-get install snakemake
Ubuntu
apt-get install snakemake
image/svg+xml Kali Linux
apt-get install snakemake
Windows (WSL2)
sudo apt-get update sudo apt-get install snakemake
OS X
brew install snakemake
Raspbian
apt-get install snakemake
Dockerfile
dockerfile.run/snakemake

snakemake

pythonic workflow management system

Build systems like GNU Make are frequently used to create complicated workflows, e.g. in bioinformatics. This project aims to reduce the complexity of creating workflows by providing a clean and modern domain specific language (DSL) in Python style, together with a fast and comfortable execution environment.