Snakemake--a scalable bioinformatics workflow engine
- Bioinformatics. 2012 Oct 1;28(19):2520-2. doi: 10.1093/bioinformatics/bts480.
Affiliations
- 1. Genome Informatics, Institute of Human Genetics, University of Duisburg-Essen and Paediatric Oncology, University Childrens Hospital, 45147 Essen, Germany. [email protected]
PMID: 22908215
DOI: 10.1093/bioinformatics/bts480
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: [email protected].