GMOD: Difference between revisions

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[[Image:GMOD_home.jpg|left|Home Page|thumb|250px]]
[[Image:GMOD_home.jpg|right|Home Page|thumb|350px]]


[http://gmod.org/ '''GMOD'''] is the '''G'''eneric '''M'''odel '''O'''rganism '''D'''atabase project, a collection of open source software tools for creating and managing genome-scale biological databases. You can use it to create a small laboratory database of genome annotations, or a large web-accessible community database. [http://gmod.org/wiki/GMOD_Components GMOD tools] are in use at many large and small community databases.
[http://gmod.org/ '''GMOD'''] is the '''G'''eneric '''M'''odel '''O'''rganism '''D'''atabase project, a collection of open source software tools for creating and managing genome-scale biological databases. You can use it to create a small laboratory database of genome annotations, or a large web-accessible community database. [http://gmod.org/wiki/GMOD_Components GMOD tools] are in use at many large and small community databases.
== GMOD Tools ==
GMOD has a wide variety of tools for many different purposes:
{| cellpadding="10px"
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'''Community Annotation'''
* [http://gmod.org/wiki/Apollo Apollo]
* Wiki [http://gmod.org/wiki/Table Editor Table Editor]
'''Comparative Genome Visualization'''
*[http://gmod.org/wiki/CMap CMap]
*[http://gmod.org/wiki/GBrowse_syn GBrowse_syn]
*[http://gmod.org/wiki/SynView SynView]
*[http://gmod.org/wiki/SynBrowse SynBrowse]
*[http://gmod.org/wiki/Sybil Sybil]
'''Database schema'''
*[http://gmod.org/wiki/Chado Chado]
Chado web front ends:
* [http://gmod.org/wiki/GMODWeb GMODWeb]
* [http://gmod.org/wiki/Tripal Tripal]
'''Database tools'''
*[http://gmod.org/wiki/Argos Argos]
*[http://gmod.org/wiki/BioMart BioMart]
*[http://gmod.org/wiki/Genome_grid Genome grid]
*[http://gmod.org/wiki/GMODTools GMODTools]
*[http://gmod.org/wiki/InterMine InterMine]
*[http://gmod.org/wiki/LuceGene LuceGene]
*[http://gmod.org/wiki/XORT XORT]
| valign="top" |
'''Gene Expression Visualization'''
*[http://gmod.org/wiki/Caryoscope Caryoscope]
*[http://gmod.org/wiki/GeneXplorer GeneXplorer]
*[http://gmod.org/wiki/Java_TreeView Java TreeView]
'''Genome Annotation'''
*[http://gmod.org/wiki/Apollo Apollo]
*[http://gmod.org/wiki/MAKER MAKER]
'''Genome Visualization & Editing'''
*[http://gmod.org/wiki/Apollo Apollo]
*[http://gmod.org/wiki/Flash_GViewer Flash GViewer]
*[http://gmod.org/wiki/GBrowse GBrowse]
*[http://gmod.org/wiki/GMODWeb GMODWeb]
*[http://gmod.org/wiki/JBrowse JBrowse]
*[http://gmod.org/wiki/Restriction_Graphic_Viewer Restriction Graphic Viewer]
'''Literature Tools'''
* [http://gmod.org/wiki/PubSearch PubSearch]
* [http://gmod.org/wiki/Textpresso Textpresso]
|  valign="top" |
'''Molecular Pathway Visualization'''
* [http://gmod.org/wiki/Pathway_Tools Pathway Tools]
'''Ontology Visualization'''
* [http://gmod.org/wiki/GO_Graphic_Viewer Go Graphic Viewer]
'''Workflow Management'''
*[http://gmod.org/wiki/TIGR-Workflow_/_Ergatis Ergatis]
'''Middleware'''
*[http://gmod.org/wiki/Modware Modware]
*[http://gmod.org/wiki/Chado::AutoDBI Chado::AutoDBI]
'''Tool Integration'''
*[http://gmod.org/wiki/Galaxy Galaxy]
'''Sequence Alignment'''
*[http://gmod.org/wiki/BLAST_Graphic_Viewer |Blast Graphic]
'''Utilities'''
*[http://gmod.org/wiki/org.bdgp org.bdgp]
|}

Latest revision as of 00:11, 23 May 2010


Link/URL:

Gmod.org/wiki

What:

An open source project for creating and managing genome-scale biological databases. See the project overview for more.

Who:

Community Based

Updates:

Daily

Upcoming events:

GMOD Calendar

Web Services:

None

edit table


Home Page

GMOD is the Generic Model Organism Database project, a collection of open source software tools for creating and managing genome-scale biological databases. You can use it to create a small laboratory database of genome annotations, or a large web-accessible community database. GMOD tools are in use at many large and small community databases.

GMOD Tools

GMOD has a wide variety of tools for many different purposes:

Community Annotation

Comparative Genome Visualization

Database schema

Chado web front ends:

Database tools

Gene Expression Visualization

Genome Annotation

Genome Visualization & Editing

Literature Tools

Molecular Pathway Visualization

Ontology Visualization

Workflow Management

Middleware

Tool Integration

Sequence Alignment

Utilities

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