Chado controller: advanced annotation management with a community annotation system.
| Title | Chado controller: advanced annotation management with a community annotation system. |
| Publication Type | Journal Article |
| Year of Publication | 2012 |
| Authors | Guignon, Valentin, Droc Gaëtan, Alaux Michael, Baurens Franc-Christophe, Garsmeur Olivier, Poiron Claire, Carver Tim, Rouard Mathieu, and Bocs Stéphanie |
| Journal | Bioinformatics (Oxford, England) |
| Volume | 28 |
| Pagination | 1054-6 |
| Date Published | 2012 Apr 1 |
| ISSN | 1367-4811 |
| Keywords | Computational Biology, Database Management Systems, Genomics, Molecular Sequence Annotation, Software, Vocabulary, Controlled |
| Abstract | SUMMARY: We developed a controller that is compliant with the Chado database schema, GBrowse and genome annotation-editing tools such as Artemis and Apollo. It enables the management of public and private data, monitors manual annotation (with controlled vocabularies, structural and functional annotation controls) and stores versions of annotation for all modified features. The Chado controller uses PostgreSQL and Perl. AVAILABILITY: The Chado Controller package is available for download at http://www.gnpannot.org/content/chado-controller and runs on any Unix-like operating system, and documentation is available at http://www.gnpannot.org/content/chado-controller-doc The system can be tested using the GNPAnnot Sandbox at http://www.gnpannot.org/content/gnpannot-sandbox-form CONTACT: valentin.guignon@cirad.fr; stephanie.sidibe-bocs@cirad.fr SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online. |
| DOI | 10.1093/bioinformatics/bts046 |
| Alternate Journal | Bioinformatics |
