Tag: Snakemake

Snakemake Tutorial with Johannes Köster

FONDA has invited Professor Johannes Köster to give a tutorial on Snakemake, a widely used, python based workflow management system. Snakemake allows users to create scalable, human readable, reproducible workflows for scientific data analysis.

Professor Köster the leader of the Bioinformatics and Computational Oncology group at the Institute for AI in Medicine at the University of Duisburg-Essen, where his work focuses on reproducibility and bioinformatics workflows. He is the author and lead developer of Snakemake.

The full-day tutorial will be on July 02, 2025 starting at 9 am. Please contact Tobias Price if you are interested in attending.

FONDA Integrated Research Training Group Courses

The Integrated Research Training Group (IRTG) has been very active in the past month providing courses and workshops for FONDA’s doctoral researchers. On April 28th and 29th Seqera, the company which supports the open source workflow engine “Nextflow” provided a tutorial using Nextflow to write and evaluate bioinformatics workflows. On May 7th, the IRTG members participated in a training course in Good Scientific Practice, especially geared towards computational sciences.

Future courses include a tutorial on GitLab with scientists from the German Aerospace Center on May 20th and 21st, a course on gender bias awareness on June 17, along with courses on workflow simulator WfCommons, and python-based workflow execution engine “Snakemake”.