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GBrowse PAG 2010 Workshop

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PAG 2009 The Generic Genome Browser: A Hands on Workshop for Installing, Configuring and Using Your Own GBrowse

January 9-13, 2010
Plant and Animal Genome Conference
San Diego, California, USA


This page provides additional information about the GBrowse workshop at the Plant and Animal Genome XVIII Conference (PAG 2010) held in San Diego on January 9-13, 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.

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.

Prerequisite Software and Conference PCs

Prerequisite software for GBrowse will be pre-installed on the conference PCs in the classroom area of the California Room. Participants using these PCs will be able to setup and configure GBrowse during the workshop.

After the workshop, workshop materials and a VMware system image with GBrowse prerequisite software pre-installed will be linked to from this page. You can use VMware image to walk through the material presented at this workshop.

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

Other GMOD Presentations and Meetings

GMOD will have a strong presence at PAG 2010, including

See PAG 2010 for a more complete list of GMOD-related presentations at PAG XVIII.