Workflows with Snakemake
Workflows with Snakemake
This unit introduces Snakemake, a workflow management system that makes data analysis pipelines reproducible, scalable, and easy to share. You will learn to define rules that specify how to transform input files into output files, create dependencies between analysis steps, and build complete workflows that execute in the correct order. Snakemake automatically handles parallel execution of independent tasks and only re-runs steps when inputs change, saving time and computational resources. These hands-on exercises will teach you how to transform manual analysis steps into automated workflows that can process multiple datasets.