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<center><span style="font-size: 115%; font-weight: bold">Please take the [[GMOD News#2008 GMOD Community Survey|GMOD Community Survey]] ''now.''</span><br />There are still 50+ chances to win [[GMOD News#Get GMOD Gear!|GMOD Gear]]!<br>{{#icon: SurveyResponse.png|41 responses as of Oct 21|300px|http://gmod.org/wiki/GMOD_News#2008_GMOD_Community_Survey}}<br /><br /></center>
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<div id="MainCompBox" class="componentBox">
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<div class="compBoxHdr clear">GMOD is Social</div>
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[[File:Gmod-bird.jpg|50px|right|link=http://twitter.com/gmodproject|It's a bird! It's a plane! It's the GMOD project on Twitter!]]
  
<!-- Define the right hand sidebar.
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[http://twitter.com/gmodproject Follow '''The Tweet of GMOD''']<br>
  - News: List from GMOD News RSS feed, defined on GMOD News page.
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[http://twitter.com/gmodproject @gmodproject]
  -    Lists first 9 news items
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</div>
  - New & Revised pages: Automatically populated from Special:Recentchanges.
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<div class="zero clear">
  -    Lists last 10 changes/additions and EXCLUDES minor edits.
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[[File:LinkedInLogo-60px.png|left|link=http://www.linkedin.com/groups?gid=131368&trk=group-name|GMOD group on LinkedIn]]
  - Popular GMOD Tools: This list changes slowly and is manually maintained
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[http://www.linkedin.com/groups?gid=131368&trk=group-name Join other '''GMOD users''' on LinkedIn]
  -    by the GMOD help desk.
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</div>
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{| align="right" class="toc" style="margin-left: 0.5em; width: 20em"
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|- align="center" style="font-size: 115%; font-weight: bold"
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|{{#icon: GMODMug150x150.jpg|Drink in Style!||http://gmod.org/wiki/GMOD_News#2008_GMOD_Community_Survey}}<br />
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[[GMOD News#2008 GMOD Community Survey|Take the GMOD survey ''now''<br />and win this mug (or a T-shirt)!]]
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|- align="center" bgcolor="lightblue"
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| '''[[GMOD News]]''' {{#icon: RSSIcon16x16.gif|RSS Feed||http://gmod.org/w/index.php?title=GMOD_News&action=feed&feed=rss}}
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| '''New &amp; Revised Pages'''
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<news unique nominor nobot namespaces="main">
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&bull; [[{{{pagename}}}]]
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| '''Popular GMOD Tools'''
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|-
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|
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'''Genome Browsing and Editing'''
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<br />&nbsp;&nbsp;[[Apollo|Apollo: Genome annotation editor]]
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<br />&nbsp;&nbsp;[[GBrowse|GBrowse: Genome annotation viewer]]
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<br />'''Comparative Genomics'''
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<br />&nbsp;&nbsp;[[CMap|CMap: Comparative map viewer]]
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<br />&nbsp;&nbsp;[[Sybil|Sybil: Comparative genome viewer]]
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<br />'''Database Tools'''
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<br />&nbsp;&nbsp;[[Chado|Chado: Biological database schema]]
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<br />&nbsp;&nbsp;[[BioMart|BioMart: Data mining system]]
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<br />&nbsp;&nbsp;[[GMODTools|GMODTools: Chado to Fasta, GFF, ...]]
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<br />'''Biological Pathways'''
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<br />&nbsp;&nbsp;[[Pathway Tools|Pathway Tools: Metabolic, regulatory]]
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<br />'''Infrastructure'''
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<br />&nbsp;&nbsp;[[GMODWeb|GMODWeb: Website for Chado DBs]]
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<br />&nbsp;&nbsp;[[Modware|Modware: Middleware for Chado]]
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|}
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=Welcome to GMOD=
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<div class="compBoxHdr">[[GMOD News]][[File:RSSIcon16x16.gif|right|link={{gmod.org.url}}?title=Special%3ANewsChannel&format=rss20&limit=20&cat1=&cat2=&excat1=&wpSubmitNewsChannelParams=Create+feed|RSS feed]]<div style="float: right; padding-right: 0.5em; font-size: 80%">[[GMOD News#Adding a News Item|Add]]</div></div><rss time="1800" number="10" desc="off" title="off">http://gmod.org/wiki?title=Special%3ANewsChannel&format=rss20&limit=20&cat1=&cat2=&excat1=&wpSubmitNewsChannelParams=Create+feed</rss>
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<!-- <div class="compBoxHdr">[[Special:Recentchanges|New &amp; Revised Pages]][[File:RSSIcon16x16.gif|right|link=http://gmod.org/mediawiki/index.php?title=Special:Recentchanges&feed=rss|All recent changes feed]]</div>
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[[{{{pagename}}}]] &bull;
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</div>
  
'''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. GMOD tools are in use at [[MOD|many large and small community databases]].
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<div class="intro">
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Welcome to the '''Generic Model Organism Database''' project, a collection of open source software tools for managing, visualising, storing, and disseminating genetic and genomic data.<!-- 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 [[MOD|many large and small community databases]]. -->
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</div>
  
=== How do I Get Started? ===
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=== Get Started ===
  
See [[Overview]] for the big picture.  For an introduction to specific GMOD components see the list of the most popular tools at the right, or visit [[GMOD Components]] for a comprehensive list of GMOD tools.  If GMOD looks promising for your needs, consider attending the next [[:Category:Meetings|GMOD meeting]].
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Read the [[Overview|GMOD overview]] for the big picture, or visit [[GMOD Components]] for a comprehensive list of GMOD tools.  If GMOD looks promising for your needs, consider attending the next [[Meetings|GMOD community meeting]].
  
=== How do I Get Support? ===
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=== Get Support ===
  
GMOD support is available from several different sources. [[Finding Support]] introduces each support option (this web site, [[GMOD Mailing Lists]], and the [[GMOD Help Desk]]) and offers guidance on which one is the most appropriate for your question.
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GMOD support is available from several different sources. [[Support]] introduces each support option (this web site, [[GMOD Mailing Lists]], [[Training and Outreach]] activities (including [[GMOD Schools]]), and the [[GMOD Help Desk]]) and offers guidance on which one is the most appropriate for your question.
  
=== How do I Get Involved? ===
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=== Get Involved ===
  
As an open source project GMOD relies on the donation of time and software by groups and individuals.  Contribution of new tools, adoption of existing ones, and improving the documentation are all welcome. [[MOD|Existing]] and potential users are encouraged to provide feedback via [[GMOD Mailing Lists|mailing lists]] or the [[GMOD Help Desk|help desk]]. The [[GMOD Project Page]] lists projects in need of ideas and developers.
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As an open source project GMOD relies on the [[GMOD Membership|donation of time and software]] by groups and individuals.  Contribution of new tools, adoption of existing ones, and [[Site Guidelines|improving the documentation]] are all welcome. [[MOD|Existing]] and potential users are encouraged to provide feedback via [[GMOD Mailing Lists|mailing lists]] or the [[GMOD Help Desk|help desk]]. <!-- The [[GMOD Project Page]] lists projects in need of ideas and developers.--> You can also attend project [[meetings]].
  
You can also attend project [[:Category:Meetings|meetings]].  The next meeting will likely be in January 2009.  The most recent meeting was the [[July 2008 GMOD Meeting]].
 
  
==== Contributing Organizations ====
 
  
<!-- Please scale any icons to be the same size as the
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=== Popular GMOD Tools ===
  - existing icons before adding it to this list.
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  -->
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See the [[GMOD Components|full list of GMOD components]]
<center>
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{{#icon: FlyBaseMainPageIcon.png|FlyBase||http://www.flybase.org/}}&nbsp;&nbsp;
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<div class="logos">
{{#icon: Wdb_small.gif|WormBase||http://www.wormbase.org/}}
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[[File:Jbrowse2_logo.png|250px|thumb|none|link=JBrowse|JBrowse 2: New super-fast genome annotation viewer]]
{{#icon: WFleaBaseMainPageIcon.png|wFleaBase||http://wfleabase.org/}}&nbsp;&nbsp;
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[[File:GBrowseLogo.png|250px|thumb|none|link=GBrowse|GBrowse: Genome annotation viewer]]
{{#icon: CSHL_Logo75x75.gif|CSHL||http://www.cshl.edu/}}&nbsp;&nbsp;&nbsp;
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[[File:GalaxyLogoBigger.png|250px|thumb|none|link=Galaxy|Galaxy: Data analysis & integration]]
{{#icon: GrameneMainPageIcon.jpg|Gramene||http://www.gramene.org/}}&nbsp;&nbsp;&nbsp;&nbsp;
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[[File:ChadoLogo.png|250px|thumb|none|link=Chado|Chado: Biological database schema]]
{{#icon: TAIR_logo.gif|TAIR||http://www.arabidopsis.org/}}
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[[File:JBrowseLogo.png|250px|thumb|none|link=JBrowse|JBrowse: Super-fast genome annotation viewer]]
{{#icon: NESCentMainPageIcon.png|NESCent||http://www.nescent.org/}}
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[[File:Biomart250.png|250px|thumb|none|link=BioMart|BioMart: Data mining system]]
{{#icon: SGD-t.gif|SGD||http://www.yeastgenome.org/}}
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[[File:WebApolloLogo.png|250px|thumb|none|link=WebApollo|WebApollo: browser-based annotation editor]]
{{#icon: MgiMainPageLogo.jpg|MGI||http://www.informatics.jax.org/}}
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[[File:MAKERLogo.png|250px|thumb|none|link=MAKER|MAKER: Genome annotation pipeline]]
{{#icon: DictyMainPageLogo.png|DictyBase||http://dictybase.org/}}&nbsp;&nbsp;
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[[File:GBrowse_syn_logo.png|250px|thumb|none|link=GBrowse_syn|GBrowse_syn: Synteny viewer]]
{{#icon: RgdMainPageIcon.gif|RGD||http://rgd.mcw.edu/}}&nbsp;&nbsp;
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[[File:TripalLogo.png|250px|thumb|none|link=Tripal|Tripal: Chado web interface]]
{{#icon: BioCycMainPageLogo.gif|BioCyc||http://www.biocyc.org/}}&nbsp;&nbsp;
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[[File:InterMineLogo.png|250px|thumb|none|link=InterMine|InterMine: Data warehousing]]
{{#icon: InfinityPlanaria58x72.png|SmedGD||http://smedgd.neuro.utah.edu/}}&nbsp;&nbsp;&nbsp;
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[[File:CMapLogo-horiz.png|250px|thumb|none|link=CMap|CMap: Comparative map viewer]]
{{#icon: Ecoliwiki.png|EcoliWiki||http://ecoliwiki.net/}}&nbsp;&nbsp;
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[[File:PathwayTools.png|250px|thumb|none|link=Pathway_Tools|Pathway Tools: Metabolic, regulatory pathways]]
{{#icon: ParameciumDBIcon133x42.png|ParameciumDB||http://paramecium.cgm.cnrs-gif.fr/}}
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[[File:CantoTextLogo.png|250px|thumb|none|link=Canto|Canto: literature annotation tool]]
</center>
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</div>
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<!-- {{Template:Organisations}} -->

Latest revision as of 18:22, 30 March 2021

Welcome to the Generic Model Organism Database project, a collection of open source software tools for managing, visualising, storing, and disseminating genetic and genomic data.

Get Started

Read the GMOD overview for the big picture, or visit GMOD Components for a comprehensive list of GMOD tools. If GMOD looks promising for your needs, consider attending the next GMOD community meeting.

Get Support

GMOD support is available from several different sources. Support introduces each support option (this web site, GMOD Mailing Lists, Training and Outreach activities (including GMOD Schools), and the GMOD Help Desk) and offers guidance on which one is the most appropriate for your question.

Get Involved

As an open source project GMOD relies on the donation of time and software by groups and individuals. Contribution of new tools, adoption of existing ones, and improving the documentation are all welcome. Existing and potential users are encouraged to provide feedback via mailing lists or the help desk. You can also attend project meetings.


Popular GMOD Tools

See the full list of GMOD components

JBrowse 2: New super-fast genome annotation viewer
GBrowse: Genome annotation viewer
Galaxy: Data analysis & integration
Chado: Biological database schema
JBrowse: Super-fast genome annotation viewer
BioMart: Data mining system
WebApollo: browser-based annotation editor
MAKER: Genome annotation pipeline
GBrowse_syn: Synteny viewer
Tripal: Chado web interface
InterMine: Data warehousing
CMap: Comparative map viewer
Pathway Tools: Metabolic, regulatory pathways
Canto: literature annotation tool