Snakemake Tutorial Essen 2019
Learn how to do modern reproducible data science with Snakemake.
| Organizer | Daniela Beisser |
|---|---|
| Presenter | Johannes Köster, lead developer of Snakemake, founder of the Bioconda project |
| Date and Time | Aug 29, 9am-5pm (first group), Aug 30, 9am-5pm (second group) |
| Location | Room S03 S03 A05 (bioinformatics computer pool), University of Duisburg-Essen, Campus Essen |
The Snakemake workflow management system is a tool to create reproducible and scalable data analyses. Workflows are described via a human readable, Python based language. They can be seamlessly scaled to server, cluster, grid and cloud environments, without the need to modify the workflow definition. Finally, Snakemake workflows can entail a description of required software, which will be automatically deployed to any execution environment.
With over 150k downloads on Bioconda, Snakemake is a widely used and accepted standard for reproducible data science that has powered numerous high impact publications.
Program
| 9.00am | Presentation: Introduction to Snakemake |
|---|---|
| 9.30am | Tutorial: Basic practical session |
| noon | Lunch |
| 1pm | Presentation: Advanced usage of Snakemake |
| 1.30pm | Tutorial: Advanced practical session |
Requirements
- Basic programming experience (any language)
- A laptop with Linux, MacOS, or Windows with WSL