GBrowse PAG 2009 Workshop

PAG 2009

http://www.intl-pag.org/}}

The Generic Genome Browser: A Hands on Workshop for Installing, Configuring and Using Your Own GBrowse January 11, 2009 Plant and Animal Genome Conference San Diego, California, USA

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This page provides additional information about the GBrowse workshop at the Plant and Animal Genome XVII Conference (PAG 2009) being held in San Diego on January 10-14, 2009:

Overview

This will be a hands-on tutorial on how to install and use the GBrowse genome browser.

Tutorial Level

Beginner to Intermediate. Students should be comfortable performing simple system administration tasks like stopping and starting services.

Students who wish to use their own computer should preinstall the prerequisites described in the GBrowse installation notes, including Perl, Apache, MySQL and (for Unix) BioPerl.

Intended Audience

GBrowse is sufficiently easy to install that a biologist can easily set up and configure a GBrowse server after the initial hurdles of learning about configuration options and file formats are overcome. This class is intended to help them over those hurdles.

Outline

• The Basics
• The Data File
• Defining Tracks
• Searching for Named Features
• Adding Descriptions to a Feature
• Showing multi-segmented features
• Using Aggregators
• Showing Protein Coding Genes
• Showing the Reading Frame
• Creating Custom Aggregators
• Showing Quantitative Data
• Displaying DNA and 3-frame translations
• Features added in latest release, including draggable and collapsible tracks, and popup balloons

Workshop Instructor

• Scott Cain, GMOD Project Coordinator, Cold Spring Harbor Laboratory

Mailing List

If you are planning on or thinking about attending this workshop, please sign up for the workshop's the mailing list. Announcements relevant to the course, such as when data files are available for download, will be sent to the list.

Datasets

Example datasets will be posted prior to the conference.