February 4 + February 5 2013
**Workshops for the Johns Hopkins community
Instructors: Dave Clements, Mo Heydarian
9:00am-4:30pm
Rangos 490
725 North Wolfe Street**
 Reddy and Sollner-Webb Labs |
 Salzberg Lab |
|
 |
||
Registration
Registration was free, and open to anyone in the Johns Hopkins community. Both workshops were full and had waiting lists.
Audience
Are you a biomedical researcher who needs to do complex analysis on large datasets?
Galaxy is an open, web-based platform for data intensive biomedical research that enables non-bioinformaticians to create, run, tune, and share their own bioinfor-matic analyses.
These hands-on workshops will teach participants how to integrate data, and perform simple and complex analysis within Galaxy. They 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
| 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 |
| 10:20 | Basic Analysis into Reusable Workflows Genericize our analysis into something we can use again. |
| 10:40 | Break |
| 11:00 | RNA-Seq Example Part I Review NGS data quality issues and some quality control options in Galaxy; Mapping and Splice Junction Calling with Tophat |
| 12:00 | Galaxy Project Overview Introduction to Galaxy and the Galaxy community |
| 12:20 | Lunch (catered) |
| 1:05 | RNA-Seq Example Part II Cufflinks, Visualization, and Visual Analytics |
| 1:55 | Sharing, Publishing, and Reproducibility with Galaxy Share and publish analysis, datasets, and workflows with Galaxy |
| 2:15 | Break |
| 2:35 | 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 |
| 4:30 | Done |
Support
This workshop is generously supported by an AWS in Education grant award, and the Department of Biological Chemistry @ Johns Hopkins and the Center for Computational Biology.
Slides
Flyer
Questions?
Contact [Mo Heydarian](mailto:mheydar1 AT jhmi DOT edu) or [Galaxy Outreach](mailto:outreach AT galaxyproject DOT org).