Snakemake--a Scalable Bioinformatics Workflow Engine

Overview

Journal Bioinformatics

Publisher Oxford University Press

Specialty Biology

Date 2012 Aug 22

PMID 22908215

Citations 1104

Authors

Johannes Koster

Sven Rahmann

Affiliations

Soon will be listed here.

Abstract

Summary: Snakemake is a workflow engine that provides a readable Python-based workflow definition language and a powerful execution environment that scales from single-core workstations to compute clusters without modifying the workflow. It is the first system to support the use of automatically inferred multiple named wildcards (or variables) in input and output filenames.

Availability: http://snakemake.googlecode.com.

Contact: johannes.koester@uni-due.de.

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