Apr. 26th, 2016 Ontology Working Group Meeting: Difference between revisions
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** [https://sites.google.com/a/cgxchange.org/cropontologycommunity/workshop-on-harmonization-semantic-and-integration-of-phenotypic-and-agronomic-data-9-13-may-2016-montpellier-france/list-of-participants PhenoHarmonIS_List-of-participants] | ** [https://sites.google.com/a/cgxchange.org/cropontologycommunity/workshop-on-harmonization-semantic-and-integration-of-phenotypic-and-agronomic-data-9-13-may-2016-montpellier-france/list-of-participants PhenoHarmonIS_List-of-participants] | ||
* Still finalizing the agenda | * Still finalizing the agenda, final version TBA | ||
** https://docs.google.com/a/cgxchange.org/document/d/1rRVEu8X-E_a5tgTFYMrC10Ag-cGE0mqUf_yICrU26QY/edit?usp=sharing | ** https://docs.google.com/a/cgxchange.org/document/d/1rRVEu8X-E_a5tgTFYMrC10Ag-cGE0mqUf_yICrU26QY/edit?usp=sharing | ||
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Papers will be published in a book of proceedings, not in a journal | Papers will be published in a book of proceedings, not in a journal | ||
==AmiGO2 Update: == | |||
* New version of AmiGO is in the works- you can preview it here: http://tomodachi.berkeleybop.org/amigo/landing | |||
* Significant changes: | |||
** Actual browser functionality | |||
** Neighborhood tab (was ancestors and children) | |||
** All relations will be displayed..????? | |||
** annotations by species | |||
Revision as of 16:04, 22 April 2016
Planteome Ontology WG Zoom Meeting
- Date: Tuesday Apr. 26th, 2016
- Time: 8:15am PDT (GMT-7)
- Connection details: Join from PC, Mac, Linux, iOS or Android: https://zoom.us/j/762470789
- attendees:
Agenda
Update on the plans for the PhenoHarmonIS Meeting in Montpellier, 9-13 May 2016
- Link to website: https://sites.google.com/a/cgxchange.org/cropontologycommunity/home
- http://tinyurl.com/hzsho6v
- About 70+ Participants are signed up:
- Still finalizing the agenda, final version TBA
- First day- Plenary sessions, tool demos
- GG will give an ontology 101 session
- Following days hands-on sessions
ICBO 2016 Call for Papers is open
- ICBO call for papers is open- http://icbo.cgrb.oregonstate.edu/ICBO_submission
http://icbo.cgrb.oregonstate.edu/ICBO_submission
Deadline is May 5th
Proposed Topics, with suggested lead:
- Planteome paper- LC
- Mappings- MAL
- Annotations project on rice, cassava and lentil, etc - AM
Formats:
- Extended Abstract- up to 2 pages
- Short Papers- up to 4 pages
- Full Papers- up to 6 pages
https://easychair.org/conferences/?conf=icbo2016
Papers will be published in a book of proceedings, not in a journal
AmiGO2 Update:
- New version of AmiGO is in the works- you can preview it here: http://tomodachi.berkeleybop.org/amigo/landing
- Significant changes:
- Actual browser functionality
- Neighborhood tab (was ancestors and children)
- All relations will be displayed..?????
- annotations by species
OBA development- Chris Mungall
- CM: If there is time I would like to walk through the procedure we use to develop OBA.
- Part of this was covered in the tutorial on template-based ontology development, but we had to rush this part due to lack of time:
https://github.com/Planteome/protege-tutorial/tree/master/template-examples
- For OBA, the source of the ontology is primarily in TSVs, found here:
https://github.com/obophenotype/bio-attribute-ontology/tree/master/src/ontology/modules
- The design patterns are specified here:
https://github.com/obophenotype/bio-attribute-ontology/tree/master/src/ontology/patterns
- Together these are used to build the ontology with equivalence axioms, with the entire ontology hierarchy being inferred automatically, e.g: