Pangenotyping

Bioninformatic tools to be installed in any Linux VM in order to run the following graph-genome-based inference pipeline: https://github.com/DiltheyLab/graph-genome-workbench. For more information about the pipeline, see the GitHub page.

Requirements

Role and inference pipeline were used within the de.NBI Cloud (German Network for Bioinformatics Infrastructure) in a VM with Ubuntu 20.04 and 22.04, but it should work in other cloud suppliers.

Role Variables

Adapt the software versions to your preferences. The given variables were used to run the pipeline. Additionally, pay attention to home_path and username. They should be set up to /home/runner/workand runner when testing CI.

Dependencies

Example Playbook

• hosts: denbi_vms roles:
  • Pangenotyping

License

BSD

Author Information

Email: Alberto.Descalzo.Garcia@hhu.de