What You’ll Learn

During this hands-on workshop, you will learn how to:

• Understand why workflow managers are useful for reproducibility, portability, and scalability
• Build your first Nextflow process and workflow
• Use channels to move data between processes
• Connect multiple processes into a bioinformatics pipeline
• Configure pipelines using parameters and Nextflow configuration files
• Organize processes into reusable modules
• Integrate containers using Singularity/Apptainer or Docker
• Configure Nextflow to run jobs through SLURM
• Build and run a complete bioinformatics workflow on an HPC cluster
• By the end of the workshop, participants will have built, containerized, and run a complete four-step bioinformatics pipeline: FASTQC → trimming → FASTQC → alignment