More Resources

Talks and Posters

• Poster at ECCB 2016, The Hague, Netherlands.

• Invited talk by Johannes Köster at the Broad Institute, Boston 2015.

• Introduction to Snakemake. Tutorial Slides presented by Johannes Köster at the GCB 2015, Dortmund, Germany.

• Invited talk by Johannes Köster at the DTL Focus Meeting: “NGS Production Pipelines”, Dutch Techcentre for Life Sciences, Utrecht 2014.

• Taming Snakemake by Jeremy Leipzig, Bioinformatics software developer at Children’s Hospital of Philadelphia, 2014.

• “Snakemake makes … snakes?” - An Introduction by Marcel Martin from SciLifeLab, Stockholm 2015

• “Workflow Management with Snakemake” by Johannes Köster, 2015. Held at the Department of Biostatistics and Computational Biology, Dana-Farber Cancer Institute

External Resources

These resources are not part of the official documentation.

• A number of tutorials on the subject “Tools for reproducible research”

• Snakemake workflow used for the Kallisto paper

• An alternative tutorial for Snakemake

• An Emacs mode for Snakemake

• Flexible bioinformatics pipelines with Snakemake

• Sandwiches with Snakemake

• A visualization of the past years of Snakemake development

• Japanese version of the Snakemake tutorial

• Basic and advanced french Snakemake tutorial.

• Mini tutorial on Snakemake and Bioconda

• Snakeparse: a utility to expose Snakemake workflow configuation via a command line interface