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A web framework for genetic and genomic data
Drupal Chado
Goals
• Simplify construction of a community genomics websites
• Enable individual labs or research communities
• Encourage high-quality, standards-based websites for
data sharing and collaboration
• Expand and reuse code
Bosc2014 tripal
Bosc2014 tripal
Modules
• Organisms
• Stocks/Germplasm
• Phenotypes
• Genotypes
• Transcriptomes
• Genomes
• BLAST, KEGG, GO
results
• Ontology tagging
• Genetic Maps
• Libraries
• Contact
• Project
• Pub
• Bulk Loader
• Jobs Management
Bosc2014 tripal
Bosc2014 tripal
Bosc2014 tripal
Bosc2014 tripal
Why use Tripal?
• Its open source
• Much of the stuff you need for a website is already there
• Github
• APIs!
• Tripal Theming API: allows customization of the look-and feel of the
site through API function calls and template files.
• Tripal Module Development API: allows addition of new or custom
functionality through module development.
• Reasonably good documentation (we always welcome
additions!)
• Friendly developers
• Responsive mailing list
Dive in!
• To theme a site
• Knowledge of PHP
• Knowledge of Chado and relationships between tables (at least
tables where data of interest is stored).
• Understanding of the Tripal theming API
• Understanding of how Drupal theming works
• To development new content modules
• Above PLUS
• Understanding of the Drupal API
• Understanding of the Tripal API (described here)
Tripal.info
Future
• Integration with iPlant and other data analysis resources
• Semantic Web and Ontology integration
• Modules for new data types
• Geospatial
• Environmental
• Breeding
• Growing a great open source community!
Thanks
• Developers
• Stephen Ficklin
• Lacey Anne Sanderson
• Chun Huai Chen
• PIs
• Dorrie Main (University of Washington)
• Kirsten Betts (University of Saskatchewan)
• Jill Wegrzyn (University of Connecticut)

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Bosc2014 tripal

  • 1. A web framework for genetic and genomic data
  • 3. Goals • Simplify construction of a community genomics websites • Enable individual labs or research communities • Encourage high-quality, standards-based websites for data sharing and collaboration • Expand and reuse code
  • 6. Modules • Organisms • Stocks/Germplasm • Phenotypes • Genotypes • Transcriptomes • Genomes • BLAST, KEGG, GO results • Ontology tagging • Genetic Maps • Libraries • Contact • Project • Pub • Bulk Loader • Jobs Management
  • 11. Why use Tripal? • Its open source • Much of the stuff you need for a website is already there • Github • APIs! • Tripal Theming API: allows customization of the look-and feel of the site through API function calls and template files. • Tripal Module Development API: allows addition of new or custom functionality through module development. • Reasonably good documentation (we always welcome additions!) • Friendly developers • Responsive mailing list
  • 12. Dive in! • To theme a site • Knowledge of PHP • Knowledge of Chado and relationships between tables (at least tables where data of interest is stored). • Understanding of the Tripal theming API • Understanding of how Drupal theming works • To development new content modules • Above PLUS • Understanding of the Drupal API • Understanding of the Tripal API (described here) Tripal.info
  • 13. Future • Integration with iPlant and other data analysis resources • Semantic Web and Ontology integration • Modules for new data types • Geospatial • Environmental • Breeding • Growing a great open source community!
  • 14. Thanks • Developers • Stephen Ficklin • Lacey Anne Sanderson • Chun Huai Chen • PIs • Dorrie Main (University of Washington) • Kirsten Betts (University of Saskatchewan) • Jill Wegrzyn (University of Connecticut)