Northwestern University
    Introduction to Galaxy
    February 27, 2015, 9:00-4:00

    Instructors: Dave Clements, Matt Schipma

    Galter Health Sciences Library, Learning Resources Center
    Northwestern University Feinberg School of Medicine campus
    Chicago, Illinois, United States

    Registration

    This workshop is full.

    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

    Time Topic
    8:30 Arrival
    Arrival and coffee
    9:00 Welcome
    Introductions and logistics
    9:30 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.
    11:20 RNA-Seq Example Part I
    Review NGS data quality issues, quality control options in Galaxy, and Mapping and Splice Junction Calling
    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
    Discuss and run differential gene expression analysis, and merging multiple experiments into a single picture; Visualization and Visual Analytics
    2:45 Break
    3:00 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
    4:00 Done

    Logistics

    The workshop is being held in the Learning Resource Center of the Galter Health Sciences Library on the Northwestern University Feinberg School of Medicine campus in Chicago, Illinois.

    The Learning Resources Center has 23 computers, and seating for up to 50. Participants are encouraged to bring their own wi-fi enabled laptops as there are fewer lab computers than there are participants. If you bring your own laptop, please install Firefox or Chrome beforehand.

    Galter Health Sciences Library

    Northwestern University Research Computing Services

    Northwestern University Clinical and Translational Sciences Institute
    Feinberg School of Medicine
    Amazon Web Services

    Support

    This workshop is generously supported by Northwestern University Research Computing Services, the Galter Health Sciences Library, the Northwestern University Clinical and Translational Sciences Institute (NUCATS), the Feinberg School of Medicine, an AWS in Education grant award, and the National Institutes of Health (NIH).

    Slides

    Feedback

    Questions?

    Contact Pamela Shaw or Galaxy Outreach.