• Date: September 22nd 2017

Icahn School of Medicine at Mount Sinai
Introduction to Galaxy
January 21, 2016, and
January 22, 2016

**Instructor: Dave Clements

9:00-5:00

Location: Large Classroom (Thursday), Small Classroom (Friday)
Levy Library (11th floor)
Annenberg Building. 1468 Madison Ave.
Icahn School of Medicine at Mount Sinai (ISMMS), New York City **

Registration

Registration is free and open to any member of the ISMMS community. Space is available on a first-come, first served basis. Registration is now open. Please contact Andrew Sharp or Stuart Scott for the link.

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.

Most of the workshop will be hands-on and 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
10:45 Break
11:00 Basic Analysis into Reusable Workflows
Genericize our analysis into something we can use again.
12:20 Lunch (on your own)
1:20 RNA-Seq Example Part I
Review 1) NGS data quality issues and some quality control options in Galaxy; and 2) Mapping and Splice Junction Calling
2:50 Break
3:05 RNA-Seq Example Part II
Differential expression
5:00 Done

Icahn School of Medicine at Mount Sinai
National Institutes of Health (NIH)

Amazon Web Services

Support

This workshop is generously supported by an AWS in Education research grant award, the Icahn School of Medicine at Mount Sinai, and the National Institutes of Health (NIH).

Slides

Feedback

We need it!

Questions?

Contact Andrew Sharp,Stuart Scott, or Galaxy Outreach.