Difference between revisions of "GMOD Project Page"

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[[pr03mb4]] was here to winz OWned by http://blueentertainment.net/
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=Description=
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This page describes a variety of special GMOD project proposals that need developer support. Please contact the proposer or a [[GMOD_Mailing_Lists|mailing list]] if you think you might want to contribute to a project.
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=Projects=
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==GMOD needs for 2008 : dgg ==
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These are some thoughts on areas of GMOD that have additions in formative stages, or are on a list for consideration.  Please add your comments and suggestions.
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* automated '''genome analysis pipeline''' including TeraGrid use. See  [[Genome grid]] and [[Ergatis]] projects.
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** [[MAKER]], an annotation pipeline package for eukaryotic genomes, has been added to GMOD. ''2008/05/13''
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** [[DIYA]], a pipeline infrastructure for microbial genome annotation (suggested for inclusion) - see the [http://sourceforge.net/projects/diyg/ DIY-Genomics] project
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* database processing of '''high throughput genomics analyses''' with input, output, integration, summarization tools, including genome data types such as SNP, tile arrays, expression arrays, interaction data ... (add to this list).
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* '''[[:Category:Comparative Genomics|comparative genomics]]''' improvements.  Projects in this area include the widely used [[CMap]], and current [[Synteny|syntenic]] map projects (see [[GMOD_Components]]).  But it should expand to include better cross-species data management of analyses, phylogenetic genome statistics.
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* '''community annotation''' improvements.  This includes Wiki annotation using [[TableEdit]] and [[Hackathon wikidb]], with possible additions, as well as well-used [[Apollo]] tool.
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* '''curation automation''' and facilitation (literature, other). This includes [[PubSearch]], [[PubFetch]] (both now unsupported - 2010/10), [[Textpresso]] and possible improvements, additions.
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[[User:Dongilbert|Dongilbert]] 18:14, 7 December 2007 (EST)
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== Chado Documentation Reorganization ==
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We are reorganizing the [[:Category:Chado|Chado related documentation]] in this web site.  See the [[Chado Documentation Reorganization]] page for more on this effort and how you can help direct it.
  
 
[[Category:GMOD Community]]
 
[[Category:GMOD Community]]
 
[[Category:GMOD Developers]]
 
[[Category:GMOD Developers]]

Latest revision as of 22:07, 29 October 2010

Description

This page describes a variety of special GMOD project proposals that need developer support. Please contact the proposer or a mailing list if you think you might want to contribute to a project.

Projects

GMOD needs for 2008 : dgg

These are some thoughts on areas of GMOD that have additions in formative stages, or are on a list for consideration. Please add your comments and suggestions.

  • automated genome analysis pipeline including TeraGrid use. See Genome grid and Ergatis projects.
    • MAKER, an annotation pipeline package for eukaryotic genomes, has been added to GMOD. 2008/05/13
    • DIYA, a pipeline infrastructure for microbial genome annotation (suggested for inclusion) - see the DIY-Genomics project
  • database processing of high throughput genomics analyses with input, output, integration, summarization tools, including genome data types such as SNP, tile arrays, expression arrays, interaction data ... (add to this list).
  • comparative genomics improvements. Projects in this area include the widely used CMap, and current syntenic map projects (see GMOD_Components). But it should expand to include better cross-species data management of analyses, phylogenetic genome statistics.
  • community annotation improvements. This includes Wiki annotation using TableEdit and Hackathon wikidb, with possible additions, as well as well-used Apollo tool.
  • curation automation and facilitation (literature, other). This includes PubSearch, PubFetch (both now unsupported - 2010/10), Textpresso and possible improvements, additions.

Dongilbert 18:14, 7 December 2007 (EST)

Chado Documentation Reorganization

We are reorganizing the Chado related documentation in this web site. See the Chado Documentation Reorganization page for more on this effort and how you can help direct it.