Overview

Instructor(s): Dr. Wes Brashear

Time: Tuesday, April 28, 2026 — 10:00AM-12:30PM CT

Location: Online using Zoom

Prerequisite(s): Active HPRC account

Snakemake is a Python-based workflow management system for creating reproducible and scalable data science pipelines. Snakemake workflows can help manage software versioning, parameter selection, and generate interactive, shareable, browser-based reports. Students will learn best practices on how to incorporate Snakemake in their workflows on HPRC systems and complete hands-on exercises creating simple Snakemake workflows to more complex, multi-step pipelines culminating in descriptive workflow reports. Examples in this course will utilize common bioinformatic workflows, but the concepts covered can be applied to any pipelines incorporating data science.

Course Materials

• Incorporating Snakemake in HPC Workflows (Fall 2025): PDF

Participation

During the training, attendees are expected to log in to an HPRC cluster using their own computer and complete the instructor-led examples and exercises.

Learning Objectives and Agenda

Participants will be able to:

• Explain Snakemake workflow management system
• Explain best practices for using Snakemake on HPRC systems
• Create and execute Snakemake workflows
• Use Snakemake to generate interactive workflow reports