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<div class="compBoxHdr">[[2013 GMOD Summer School]]</div>

Revision as of 12:26, 6 April 2013

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 Community Meeting!

2013 GMOD Community Meeting

5-6 April 2013 • Cambridge UK

News and updates on all things GMOD

Guest speakers include

  • Dr Kentaro Yoshida on the Open Ash Dieback Project
  • Dr Jane Lomax on the Gene Ontology
  • Dr Manuel Corpas on BioJS

Register now or email help@gmod.org to attend online

How do I 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 GMOD community meeting.

How do I 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.

How do I 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. The GMOD Project Page lists projects in need of ideas and developers. You can also attend project meetings; the next is the April 2013 GMOD Meeting in Cambridge, UK.

Popular GMOD Tools

See the full list of GMOD components

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
GMODTools: Chado to Fasta, GFF, and more!
Textpresso: text mining
Full list of GMOD components

Contributing Organizations

FlyBase WormBase wFleaBase CSHL Gramene NESCent SGD MGI DictyBase RGD BioCyc University of Utah EcoliWiki Berkeley Lab ParameciumDB SGN FlyMine OICR CUGI Penn State University iPlant Center for Genomics and Bioinformatics Johns Hopkins University University of California Berkeley TAIR Washington State University University of Saskatchewan