Workflows on GenomeDK

HPC
Workshop
Pipeline
Workflow
gwf
Organize and run complex workflows using a simple python package on the cluster
Author

Samuele Soraggi, Dan Søndergaard, Manuel Peral-Vazquez

Published

October 23, 2025

The GenomeDK team is organizing a workshop to help you organize and run complex workflows using a simple python package on the cluster. The ABC (Accessible Bioinformatics Cafe) team is collaborating to help you get the most out of this opportunity.

Intended audience

For users of GenomeDK who want to learn building complex and reproducible pipelines. Some of the content might be bioinformatics-specific.

Date and location

October 23, 2025, 10:00-15:00 @ 1150-115

Prerequisites

Knowledge of conda or pixi environments, text file editing, standard usage of the cluster. It is optimal if you are part of a project on GenomeDK - if not you can still follow along with the exercises!

Topics:

  • Why pipelines?
  • Main pipeline languages
  • Think through your pipeline architecture
  • Dependencies
  • Set software up and prepare your first pipeline
  • Submit!
  • Polish your resource requirements
  • Wrap up

Signup

Signup happens by clicking the button below. There are 30 seats available, and they will be allocated on a first-come, first-served basis.

If you have any questions, feel free to contact us at abcafe [at] au.dk.

 

Sign up ! ! !