Difference between revisions of "Apollo"
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; [[:Image:Gb-2002-3-12-research0082.pdf|Apollo: a sequence annotation editor]] | ; [[:Image:Gb-2002-3-12-research0082.pdf|Apollo: a sequence annotation editor]] | ||
: The original 2002 Apollo publication. | : The original 2002 Apollo publication. | ||
| − | ; Apollo tutorials at the [http://www.dynamicgene.org Dynamic Gene] web site. | + | ; Apollo tutorials at the [http://www.dynamicgene.dnalc.org Dynamic Gene] web site. |
: Flash based tutorials on how to use Apollo, using rice as an example. Sections of particular interest are | : Flash based tutorials on how to use Apollo, using rice as an example. Sections of particular interest are | ||
| − | :* [http://www.dynamicgene.org/annotation/annotation.html Annotation] - how to use Apollo | + | :* [http://www.dynamicgene.dnalc.org/annotation/annotation.html Annotation] - how to use Apollo |
| − | :* [http://www.dynamicgene.org/resources/resources.html Resources] - how to download sample data and install Apollo on an MS Windows system. | + | :* [http://www.dynamicgene.dnalc.org/resources/resources.html Resources] - how to download sample data and install Apollo on an MS Windows system. |
=== Presentations === | === Presentations === | ||
Revision as of 00:10, 7 August 2012
__NOTITLE__
- Mature release
- Inactive development
- Active support
The Apollo genome editor is a Java-based application for browsing and annotating genomic sequences. There are currently two branches of Apollo, one primarily used for genome browsing and maintained at Ensembl, and the other primarily used for genome annotation and maintained at the Berkeley Bioinformatics and Open Source Projects. The latter is part of the GMOD project. WebApollo is intended as a successor to Apollo, and is currently under development.
Contents
Demo & Screenshots
See this screenshot.
Requirements
JDK 1.5 or higher.
Documentation
- Apollo user guide
- A comprehensive guide to installing and using Apollo.
- Apollo Tutorial
- The Apollo session from the 2009 GMOD Summer Schools.
- Apollo: a community resource for genome annotation editing.
- 2009 Apollo paper
- Apollo: a sequence annotation editor
- The original 2002 Apollo publication.
- 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
Development / Bug Tracking
Mailing Lists
| Mailing List Link | Description | Archive(s) | |
|---|---|---|---|
| Apollo and WebApollo | apollo | Apollo and WebApollo mailing list | Gmane (2008/04-2010/10), Nabble (2010/05+) |
| gmod-apollo-cmts | Apollo and WebApollo code updates. |
Downloads
Apollo executables for several platforms (Windows, Mac Os X, Linux, Solaris and generic Unix) are available from the Apollo web site.
The Apollo source code (which you need only if you want to modify Apollo) is available from SourceForge via SVN.
Users
Off the top of the heads of the attendees of the November 2007 GMOD Meeting. Sorted by version.
- Triggers
- VMWare
- Dolan-Rice
- Crabtree
- Paramecium
- INRA
- SFSU (Smith)
- cXML
- FlyBase
- BovineBase
- VectorBase
Current Development
Apollo's functionality is being migrated to the Web as an extension to JBrowse. For further information please see the WebApollo pages.
Logo
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.
