Introduction to Galaxy Workshop
8th - 9th June, 2015, 9:00-17:00
Instructors
Dave Clements, Galaxy Project, Johns Hopkins University
Mani Mudaliar, Glasgow Polyomics, University of Glasgow
Graham Hamilton, Glasgow Polyomics, University of Glasgow
Location
Computer Cluster 515, West Medical Building
Gilmorehill Campus, University of Glasgow
Registration
To register, please contact Glasgow Polyomics via this enquiry form.
Audience
Are you a life scientist who needs to do complex analysis on large datasets?
Galaxy is an open, web-based platform for data intensive life science research that enables non-bioinformaticians to create, run, tune, and share their own bioinformatic analyses.
This hands-on workshop will teach participants how to integrate data, and perform simple and complex analysis within Galaxy. It will also cover data visualization and visual analytics, and how to share and reuse your bioinformatic analyses, all from within Galaxy.
No programming or Linux command line experience is required.
Agenda
Day 1: Learning to Walk
| Time | Topic |
|---|---|
| 9:00 | Introduction Welcome and logistics |
| 9:30 | Basic Analysis Walk through a worked, hands-on example demonstrating basic analysis with Galaxy |
| 10:45 | Break |
| 11:15 | Basic Analysis (cont'd) |
| 12:00 | Basic Analysis into Reusable Workflows Genericise our analysis into something we can use again. |
| 12:30 | Lunch (on your own) |
| 13:30 | ChIP-Seq Analysis Our first dive into NGS data |
| 15:30 | Break |
| 16:00 | Genome Assembly Concepts Genome assembly basics and big picture |
| 16:30 | Q and A Session |
| 17:00 | Done |
Day 2: Learning to Run
| 9:00 | Overview |
|---|---|
| 9:15 | RNA-Seq Example Part I |
| 10:30 | Break |
| 10:45 | RNA-Seq Example Part II |
| 12:00 | Lunch (on your own) |
| 13:00 | SNP & Variant Calling Part I |
| 15:30 | Break |
| 15:45 | SNP & Variant Calling Part II |
| 16:15 | Setting up your own Galaxy Cluster on the Amazon Cloud Every participant will set up their own functional and populated (but short-lived) Galaxy server on the cloud |
| 17:00 | Done |
Logistics
The workshop is being held at Computer Cluster 515, West Medical Building on the Gilmorehill Campus, University of Glasgow.
The course fee is £50. A refund will be issued if a booking is cancelled more than one week prior to the workshop.
Tea and coffee will be provided, but please note that lunch is not provided.
Support
This workshop is supported by Glasgow Polyomics at the University of Glasgow, an AWS in Education grant award, and the National Institutes of Health (NIH).
Slides
- Day 1 Slides
-
Day 2 Slides
- Ecosystem Slides
Feedback
- Your feedback matters! We will ask for it at the end of the workshop.
Questions?
Contact Amy Cattanach or Dave Clements.