This record includes training materials associated with the Australian BioCommons workshop ‘Nextflow on HPC’. This workshop took place over two sessions on 18 - 19 December 2025.

Event description

Outgrown your laptop? Learn how to take your bioinformatics pipelines to the next level by scaling them on Australia’s national high performance computing (HPC) clusters.

In collaboration with the National Computational Infrastructure (NCI) and the Pawsey Supercomputing Research Centre, this hands-on workshop will equip you with the practical skills to run and optimise efficient Nextflow workflows on HPC systems.

Attendees will be guided through a series of hands-on exercises to configure nf-core workflows on NCI Gadi (PBS) and Pawsey Setonix (SLURM), and will iteratively develop a bioinformatics workflow to process larger files, and more samples.

Lead trainers: 

• Fred Jaya, Senior Bioinformatician (Australian BioCommons), Sydney Informatics Hub, University of Sydney
• Dr Michael Geaghan, Senior Bioinformatician (Australian BioCommons), Sydney Informatics Hub, University of Sydney

Facilitators: 

• Dr Mitchell O’Brien, Sydney Informatics Hub (SIH), University of Sydney

• Dr Georgina Samaha, Sydney Informatics Hub (SIH), University of Sydney

• Dr Cali Willet, Sydney Informatics Hub (SIH), University of Sydney

• Dr Kisaru Liyanage, National Computational Infrastructure (NCI) Australia

• Wenjing Xue, National Computational Infrastructure (NCI) Australia

• Dr Kristina Gagalova, Curtin University (Nextflow Ambassador)

• Gayatri Aniruddha, The University of Western Australia

Infrastructure provision: 

• Dr Sarah Beecroft, Pawset (Technical Support)

• Dr Abdullah Shaikh, National Computational Infrastructure (NCI) (Technical Support)

Host: Dr Giorgia Mori, Australian BioCommons

Training materials

Files and materials included in this record:

• Event metadata (PDF): Information about the event including, description, event URL, learning objectives, prerequisites, technical requirements etc.

Materials shared elsewhere:

The materials were developed by the Sydney Informatics Hub, University of Sydney. 

Training materials webpage:

https://sydney-informatics-hub.github.io/nextflow-hpc-workshop/