Difference between revisions of "Apollo"

Revision as of 19:23, 24 August 2012

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About Apollo

Apollo is a GUI [graphical user interface]-based tool for editing genome annotations. Like GBrowse, Apollo allows users to scroll and zoom in on areas of interest in a sequence; authorized users can edit annotations and write the changes back to the underlying database. Apollo can run off GFF3 or a Chado database, and it can also integrate with remote services, such as BLAST and Primer BLAST analyses. Apollo is a standalone Java application.

Visit the Apollo website.

Downloads

Download Apollo: http://apollo.berkeleybop.org/current/install.html

The source code for Apollo can be downloaded from https://sourceforge.net/projects/gmod/files/Apollo/.

Using Apollo

A comprehensive guide to installing and using Apollo is available from the Apollo user guide.

System Requirements

Apollo requires JDK 1.5 or higher.

Installation

Installation instructions are available from the Apollo website.

Documentation

• Apollo Javadocs

Publications, Tutorials, and Presentations

Publications on or mentioning Apollo

• Apollo: a community resource for genome annotation editing. PMID:19439563 ^[1]
• Apollo: a sequence annotation editor. PMID:12537571 ^[2] PDF

Tutorials

Apollo Tutorial

The Apollo session from the 2009 GMOD Summer Schools.

Apollo tutorials at the Dynamic Gene web site.

Flash based tutorials on how to use Apollo, using rice as an example. Sections of particular interest are

• Annotation - how to use Apollo
• Resources - how to download sample data and install Apollo on an MS Windows system.

Presentations

• Community Annotation at ParameciumDB - Linda Sperling's presentation on ParameciumDB's Community Annotation process at the November 2007 GMOD Meeting.
• Progress Report - from May 2005 GMOD Meeting
• Future Plans - from April 2004 GMOD Meeting
• Progress Report - from September 2003 GMOD Meeting
• Progress Report - from May 2003 GMOD Meeting

Contacts and Mailing Lists

Please submit bug reports to the Apollo bug tracker at Sourceforge.

Apollo Development

Apollo's functionality is being migrated to the Web as an extension to JBrowse. For further information please see the WebApollo pages.

More on Apollo

See Category:Apollo

The Apollo logo was created by Audra Radke, a participant in the Spring 2010 Logo Program, while a design student at Linn-Benton Community College.

1. ↑ Cite error: Invalid <ref> tag; no text was provided for refs named PMID:19439563
2. ↑ Cite error: Invalid <ref> tag; no text was provided for refs named PMID:12537571