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Events/NIEHS2013

NIEHS

Galaxy
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

2013 Research Triangle Galaxy Workshop Tour

NIEHS

Amazon Web Services

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 <thomas DOT randall AT nih DOT gov> or Galaxy Outreach <outreach AT galaxyproject DOT org>.