Difference between revisions of "Apollo/tool data"
(Raw data for Apollo component page) |
m (Couple of little edits to tool data) |
||
Line 1: | Line 1: | ||
+ | <noinclude>This page stores the data that populates the [[Apollo]] wiki page. | ||
+ | |||
{{ {{{template}}} | {{ {{{template}}} | ||
| name = Apollo | | name = Apollo | ||
Line 11: | Line 13: | ||
| public_server = | | public_server = | ||
| dl = Apollo executables for several platforms (Windows, Mac OS X, Linux, Solaris and generic Unix) are available from the [http://apollo.berkeleybop.org/current/index.html Apollo web site]. | | dl = Apollo executables for several platforms (Windows, Mac OS X, Linux, Solaris and generic Unix) are available from the [http://apollo.berkeleybop.org/current/index.html Apollo web site]. | ||
− | |||
− | |||
− | |||
| dl_url = http://apollo.berkeleybop.org/current/install.html | | dl_url = http://apollo.berkeleybop.org/current/install.html | ||
− | | dl_src = | + | | dl_src = The Apollo source code (only needed if you plan to modify Apollo) is available from {{SF_SVN|apollo|SourceForge}} via [[SVN]]. |
+ | | dl_src_url = https://sourceforge.net/projects/gmod/files/Apollo/ | ||
| dl_dev = | | dl_dev = | ||
+ | | dl_dev_url = | ||
| getting_started_preamble = A comprehensive guide to installing and using Apollo is available from the [http://apollo.berkeleybop.org/current/userguide.html Apollo user guide]. | | getting_started_preamble = A comprehensive guide to installing and using Apollo is available from the [http://apollo.berkeleybop.org/current/userguide.html Apollo user guide]. | ||
| req = Apollo requires JDK 1.5 or higher. | | req = Apollo requires JDK 1.5 or higher. | ||
Line 22: | Line 23: | ||
| config = | | config = | ||
| doc = * [http://apollo.berkeleybop.org/current/javadoc/ Apollo Javadocs] | | doc = * [http://apollo.berkeleybop.org/current/javadoc/ Apollo Javadocs] | ||
− | |||
| papers = * [[Apollo]]: a community resource for genome annotation editing. <span class="Z3988" title="ctx_ver=Z39.88-2004&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Ajournal&rfr_id=info%3Asid%2Focoins.info%3Agenerator&rft.genre=article&rft_id=info%3Apmid%2F19439563">PMID:19439563</span> <ref name=PMID:19439563/> | | papers = * [[Apollo]]: a community resource for genome annotation editing. <span class="Z3988" title="ctx_ver=Z39.88-2004&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Ajournal&rfr_id=info%3Asid%2Focoins.info%3Agenerator&rft.genre=article&rft_id=info%3Apmid%2F19439563">PMID:19439563</span> <ref name=PMID:19439563/> | ||
* [[Apollo]]: a sequence annotation editor. <span class="Z3988" title="ctx_ver=Z39.88-2004&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Ajournal&rfr_id=info%3Asid%2Focoins.info%3Agenerator&rft.genre=article&rft_id=info%3Apmid%2F12537571">PMID:12537571</span> <ref name=PMID:12537571/> [[Media:Gb-2002-3-12-research0082.pdf|PDF]] | * [[Apollo]]: a sequence annotation editor. <span class="Z3988" title="ctx_ver=Z39.88-2004&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Ajournal&rfr_id=info%3Asid%2Focoins.info%3Agenerator&rft.genre=article&rft_id=info%3Apmid%2F12537571">PMID:12537571</span> <ref name=PMID:12537571/> [[Media:Gb-2002-3-12-research0082.pdf|PDF]] | ||
− | |||
| presentations = * [[Media:CommunityAnnotationNov2007.pdf|Community Annotation at ParameciumDB]] - [[User:Sperling|Linda Sperling's]] presentation on [[ParameciumDB|ParameciumDB's]] [[:Category:Community Annotation|Community Annotation]] process at the [[November 2007 GMOD Meeting]]. | | presentations = * [[Media:CommunityAnnotationNov2007.pdf|Community Annotation at ParameciumDB]] - [[User:Sperling|Linda Sperling's]] presentation on [[ParameciumDB|ParameciumDB's]] [[:Category:Community Annotation|Community Annotation]] process at the [[November 2007 GMOD Meeting]]. | ||
* [[Media:Apollo.ppt|Progress Report]] - from [[May 2005 GMOD Meeting]] | * [[Media:Apollo.ppt|Progress Report]] - from [[May 2005 GMOD Meeting]] | ||
Line 31: | Line 30: | ||
* [[Media:Apollo.GMOD.ppt|Progress Report]] - from [[September 2003 GMOD Meeting]] | * [[Media:Apollo.GMOD.ppt|Progress Report]] - from [[September 2003 GMOD Meeting]] | ||
* [[Media:Apollo.GMOD.May2003.ppt|Progress Report]] - from [[May 2003 GMOD Meeting]] | * [[Media:Apollo.GMOD.May2003.ppt|Progress Report]] - from [[May 2003 GMOD Meeting]] | ||
− | |||
| tutorials = ; [[Apollo Tutorial]] | | tutorials = ; [[Apollo Tutorial]] | ||
: The Apollo session from the [[GMOD Schools|2009 GMOD Summer Schools]]. | : The Apollo session from the [[GMOD Schools|2009 GMOD Summer Schools]]. | ||
Line 46: | Line 44: | ||
| dev_ppl = | | dev_ppl = | ||
− | | dev_status = Apollo | + | | dev_status = Active development of Apollo has ceased; the focus has shifted to [[WebApollo]], a web-based version of the tool. |
| contact_email = | | contact_email = | ||
| formats = | | formats = | ||
| see_also = | | see_also = | ||
− | |||
− | |||
| demo_server = | | demo_server = | ||
| survey_link = Apollo | | survey_link = Apollo | ||
}} | }} |
Revision as of 01:49, 27 November 2012
This page stores the data that populates the Apollo wiki page.
{{ {{{template}}} | name = Apollo | full_name = | status = Mature release | dev = development inactive | os = mac, win, linux, unix | logo = ApolloLogo.png | home = http://apollo.berkeleybop.org/ | about = 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. | screenshot = | public_server = | dl = Apollo executables for several platforms (Windows, Mac OS X, Linux, Solaris and generic Unix) are available from the Apollo web site. | dl_url = http://apollo.berkeleybop.org/current/install.html | dl_src = The Apollo source code (only needed if you plan to modify Apollo) is available from SourceForge via SVN. | dl_src_url = https://sourceforge.net/projects/gmod/files/Apollo/ | dl_dev = | dl_dev_url = | getting_started_preamble = A comprehensive guide to installing and using Apollo is available from the Apollo user guide. | req = Apollo requires JDK 1.5 or higher. | install = Installation instructions are available from the Apollo website. | config = | doc = * Apollo Javadocs | papers = * Apollo: a community resource for genome annotation editing. PMID:19439563 [1]
| 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
| 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.
| wild_urls = | mail =
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. |
Please submit bug reports to the Apollo bug tracker at Sourceforge. | logo_info = 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.
| dev_ppl = | dev_status = Active development of Apollo has ceased; the focus has shifted to WebApollo, a web-based version of the tool.
| contact_email =
| formats =
| see_also =
| demo_server =
| survey_link = Apollo
}}
Cite error: <ref>
tags exist, but no <references/>
tag was found