TreeGenes
Launch Galaxy
| Public Server: | TreeGenes Galaxy (US) |
|---|---|
| Scope: | Domain Specific |
| Summary: | TreeGenes integrates genotype, phenotype, and environmental data that can be processed for association mapping and landscape genomics, with a focus on forest trees. This functionality is provided by Tripal Galaxy, a module for Tripal that provides seamless support for running Galaxy workflows directly in the site. Users can analyze data provided by TreeGenes or their own. |
Comments
- TreeGenes is utilizing the Tripal Galaxy API in order to provide seamless Galaxy workflow support to users on the site. Examples currently in development
- CartograTree: Web-based map-driven module to provide association and landscape genomics. Uses Sambada
- Orthoquery: Module to assess and visualize gene family evolution. Uses tools: VSEARCH, OrthoFinder, Diamond and TransDecoder
User Support
- Accounts can be requested through the TreeGenes site
Quotas
- Anonymous access and account creation are goth supported.
Citations
- Growing and cultivating the forest genomics database, TreeGenes, Taylor Falk, Nic Herndon, Emily Grau, Sean Buehler, Peter Richter, Sumaira Zaman, Eliza M Baker, Risharde Ramnath, Stephen Ficklin, Margaret Staton, Frank A Feltus, Sook Jung, Doreen Main, Jill L Wegrzyn. Database, Volume 2018, 1 January 2018, bay084, doi: 10.1093/database/bay084
- Beyond Search and Display – Analyze Tripal Data with CartograTree, by Sean Buehler, presented at Plant and Animal Genome XXVII (PAG 2019)
- TreeGenes tagged publications in the Galaxy Publication Library
Sponsors
- Department of Ecology and Evolutionary Biology, University of Connecticut
- Department of Horticulture, Washington State University
- Department of Entomology and Plant Pathology, University of Tennessee
- Department of Genetics and Biochemistry, Clemson University