Preprintgreen2017

Bioinformatics Workflow Management With The Wobidisco Ecosystem

Sébastien Mondet · Bülent Arman Aksoy · Leonid Rozenberg · Isaac Hodes · Jeff Hammerbacher

6 citations0/0 files storedbioRxiv (Cold Spring Harbor Laboratory)

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Scientific Computing and Data Management Genomics and Phylogenetic Studies Genetics, Bioinformatics, and Biomedical Research

Abstract

References To conduct our computational experiments, our team developed a set of workflow-management-related projects: Ketrew, Biokepi, and Coclobas. The family of tools and libraries are designed with reliability and flexibility as main guiding principles. We describe the components of the software stack and explain the choices we made. Every piece of software is free and open-source; the umbrella documentation project is available at https://github.com/hammerlab/wobidisco .

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2010Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences 2012Snakemake—a scalable bioinformatics workflow engine 2012Bpipe: a tool for running and managing bioinformatics pipelines 2010Ruffus: a lightweight Python library for computational pipelines 2015Experiences with workflows for automating data-intensive bioinformatics 2014COSMOS: Python library for massively parallel workflows

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