Getting Started (HPC Workflow)

This repository contains short guides and templates to help you start running jobs on HPC clusters.

Repository structure

• 01-cluster-basics/: first connection, file transfers, and SLURM job scripts.
• 02-docker/: building reproducible container images locally with Docker.
• 03-apptainer/: running those images on the cluster with Apptainer.
• 04-snakemake/: workflow automation with Snakemake.

Recommended order

1. Start with 01-cluster-basics/README.md.
2. Continue with 02-docker/README.md.
3. Then 03-apptainer/README.md.
4. Finish with 04-snakemake/README.md.