Nov 24th, 2015 Ontology Working Group Meeting: Difference between revisions
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* Also Sinisa, Eugene, Botong | * Also Sinisa, Eugene, Botong | ||
==The overall goal is to enrich the Trait Ontology with terms that can be mapped to their equivalents in the various crop specific trait dictionaries.== | ==*The overall goal is to enrich the Trait Ontology with terms that can be mapped to their equivalents in the various crop specific trait dictionaries.== | ||
==Workflow | ==Workflow Details== | ||
* For test group- lentil (Karthica), Sweet Potato (Omar & Vilma), cassava (Aflola), banana (Leo), soybean (rex) | |||
* Work coordinated through GitHub site | |||
* Readme file on each GitHub repo should be filled in with this information | |||
* TD xls file - stay intact as a reference | * TD xls file - stay intact as a reference | ||
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* MAL should put the computationally-derived mappings on the gsheet as well. That way we could review them | * MAL should put the computationally-derived mappings on the gsheet as well. That way we could review them | ||
Curators should Open TO tracker Issues for terms they need added to TO: | * Curators should Open TO tracker Issues for terms they need added to TO: | ||
Template for missing terms or ones that need revision: | **Template for missing terms or ones that need revision: | ||
Ref to CO term name and ID | ** Ref to CO term name and ID | ||
entity and attribute | ** entity and attribute | ||
proposed TO term name | ** proposed TO term name | ||
Proposed parent in TO | ** Proposed parent in TO | ||
proposed TO definition | **proposed TO definition | ||
* Optional information: | |||
** link to CO term on CO website | |||
** method and scale (is also on the gsheet) | |||
** literature citation | |||
= TermGenie= | |||
* TermGenie Instance for TO- Questions and Issues: | |||
* Link to TG instance for TO: http://to.termgenie.org/ | |||
* Comments have been moved to new Issue: [https://github.com/Planteome/plant-trait-ontology/issues/361] | |||
* Proposed workflow for new requesters (from CM): | |||
Sign up for a persona account (use the link above) | |||
Add a ticket to the TO tracker, include persona username, requesting TG permission. I will take care of these. | |||
=AmiGO2= | |||
Revision as of 17:08, 24 November 2015
Planteome Ontology WG Zoom Meeting:
Date: Tuesday Nov. 24th, 2015 Time: 9am PST (GMT-8)
- Connection details: Join from PC, Mac, Linux, iOS or Android: https://zoom.us/j/551476918
Attendees: - AM, MAL, Lol, PJ, JE ..... Regrets:
Review of recent Planteome Developers' Workshop, Nov 9th-13th, 2015 Corvallis, OR
- Link to workshop page: http://planteome.org/curation_workshop_2015
- Link to Agenda page: [1]
Attendees:
- Laurel Cooper, Pankaj Jaiswal, Austin Meier, Justin Elser, Justin Preece- Planteome project, OSU
- Barry Smith
- Chris Mungall, Seth Carbon
- Marie-Angélique Laporte, Leo Valette, Elizabeth Arnaud (remotely)
- Vilma Hualla, Omar Benites CIP- Sweet Potato
- Agbona Afolabi- Cassava IITA
- Karthika Rajendra- Lentil ICARDA
- Rex Nelson- SoyBase
- Also Sinisa, Eugene, Botong
*The overall goal is to enrich the Trait Ontology with terms that can be mapped to their equivalents in the various crop specific trait dictionaries.
Workflow Details
- For test group- lentil (Karthica), Sweet Potato (Omar & Vilma), cassava (Aflola), banana (Leo), soybean (rex)
- Work coordinated through GitHub site
- Readme file on each GitHub repo should be filled in with this information
- TD xls file - stay intact as a reference
- Create a mapping spreadsheet- similar to “lentil-mapping-TO-CO_339.xls”- leaving the method and scale in and move to a tab in the google spreadsheet
- Owl file with proposed mappings- MAL will extract mapping from owl files- add to mapping spreadsheet on gsheet. These are the ones the curators selected
- MAL should put the computationally-derived mappings on the gsheet as well. That way we could review them
- Curators should Open TO tracker Issues for terms they need added to TO:
- Template for missing terms or ones that need revision:
- Ref to CO term name and ID
- entity and attribute
- proposed TO term name
- Proposed parent in TO
- proposed TO definition
- Optional information:
- link to CO term on CO website
- method and scale (is also on the gsheet)
- literature citation
TermGenie
- TermGenie Instance for TO- Questions and Issues:
- Link to TG instance for TO: http://to.termgenie.org/
- Comments have been moved to new Issue: [2]
- Proposed workflow for new requesters (from CM):
Sign up for a persona account (use the link above) Add a ticket to the TO tracker, include persona username, requesting TG permission. I will take care of these.