Introduction to Galaxy for NGS analysis

Overview

Instructor: Michael Dickens

Time: Friday, October 22, 1:30PM-4:00PM

Location: Blocker 220 and online using Zoom

Prerequisites: HPRC account.

This short course covers usage and best practices for HPRC Maroon Galaxy. Topics include: documentation, accessing Maroon Galaxy, tools, HPRC SU balance, quotas, uploading files, downloading files, managing histories, shared data, genome indexes, launching jobs, workflows, debugging, and Galaxy training.

Course Materials

Presentation slides

The presentation slides are available as downloadable PDF files.

  • Introduction to HPRC Galaxy (Fall 2021): PDF
  • Introduction to HPRC Galaxy (Fall 2017): PDF

Agenda

This course focuses, among others, on the following topics:

HPRC Galaxy

  • Galaxy training
  • HPRC Galaxy documentation
  • Accessing Maroon Galaxy
  • Tools
  • HPRC SU balance
  • Quotas
  • Uploading files
  • Downloading files
  • Managing histories
  • Shared data
  • Genome indexes
  • Launching jobs
  • Workflows
  • Debugging

Note: During the class sessions many aspects of the material will be illustrated live via a login to Grace. Attendees are welcome to follow these parts with their own laptops.

Attendees can follow the exercises using usegalaxy.org if they do not have an HPRC Galaxy account.


You are encouraged to contact the HPRC helpdesk with any questions regarding Grace.