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July 18, 2013
**Instructor: Dave Clements
9:00-5:00
NIEHS Rall Room 101/A262
Research Triangle Park, NC**
Registration
Registration is free, first come first served, and open to anyone at NIEHS. Registration will be done internally at NIEHS. See the announcement email.
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
The agenda below is tentative and should be considered a work in progress.
| Time | Topic |
|---|---|
| 9:00 | Welcome Introductions and logistics |
| 9:20 | Basic Analysis with Galaxy Walk through a worked, hands-on example demonstrating basic analysis with Galaxy |
| 10:40 | Break |
| 11:00 | Basic Analysis into Reusable Workflows Genericize our analysis into something we can use again. |
| 11:20 | RNA-Seq Example Part I Review NGS data quality issues and some quality control options in Galaxy; Mapping and Splice Junction Calling with Tophat |
| 12:20 | Lunch (on your own) |
| 1:35 | Galaxy Project Overview Introduction to Galaxy and the Galaxy community |
| 1:55 | RNA-Seq Example Part II Cufflinks, Visualization, and Visual Analytics |
| 2:45 | Break |
| 3:05 | Sharing, Publishing, and Reproducibility with Galaxy Share and publish analysis, datasets, and workflows with Galaxy |
| 3:25 | 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 |
| 5:00 | Done |
Support
This workshop is generously supported by an AWS in Education grant award, and the National Institute of Environmental Health Sciences.
This workshop is also part of the NIEHS 2013 Introduction to Biostatistics and Bioinformatics Summer Short Courses series and the 2013 Research Triangle Galaxy Workshop Tour.
Slides
- Slides (will be posted before the workshop)
Questions?
Contact [Thomas Randall](mailto:thomas DOT randall AT nih DOT gov) or [Galaxy Outreach](mailto:outreach AT galaxyproject DOT org).