Planteome Curator workshop Fall 2015: Difference between revisions
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= Dates: Week of Monday, Nov. 9th to Friday Nov. 13th= | = Note: This page is under development, so check back frequently= | ||
See link to [http://planteome.org/curation_workshop_2015 Planteome Curation Workshop Webpage] | |||
== Dates: Week of Monday, Nov. 9th to Friday Nov. 13th== | |||
* People could arrive Sunday Nov 8th. See below for more info on the logistics | * People could arrive Sunday Nov 8th. See below for more info on the logistics | ||
* Who should attend? Planteome Ontology team: developers and software team and experts from various crops | * Who should attend? Planteome Ontology team: developers and software team and experts from various crops | ||
* Barry Smith- (will attend Nov 10th | ** Barry Smith- (will attend Nov 9th-10th) | ||
* Dennis will attend remotely on Mon Nov 9th and Tues Nov 10th | ** Dennis will attend remotely on Mon Nov 9th and Tues Nov 10th | ||
* Chris Mungall and Seth Carbon | ** Chris Mungall and Seth Carbon | ||
* Marie-Angelique LaPorte | ** Marie-Angelique LaPorte | ||
* LC, JE, AM | ** LC, JE, AM | ||
* Not able to attend: Elizabeth, George and John | |||
* Will invite the CO curators who are interested, can have another session at the PAG meeting for those who cannot attend | * Will invite the CO curators who are interested, can have another session at the PAG meeting for those who cannot attend | ||
= Goals of the meeting= | == Goals and Agenda of the meeting== | ||
== 1. Strategic Planning == | === 1. Strategic Planning === | ||
* Goal: Form a strategic plan on '''how to build each ontology''' and '''how they fit together in the Planteome''' | * Goal: Form a strategic plan on '''how to build each ontology''' and '''how they fit together in the Planteome''' | ||
* Who: Core Ontology Working Group: | * Who: Core Ontology Working Group: | ||
** PJ, LC, AM, JE, DWS, CM, BS, EA, MAL, GG, SC | ** PJ, LC, AM, JE, DWS, CM, BS, EA, MAL, GG, SC | ||
==2. GitHub, TermGenie and Protege Training== | ===2. GitHub, TermGenie and Protege Training=== | ||
* Lead by Chris Mungall, Marie-Angelique can assist | * Lead by Chris Mungall, Marie-Angelique can assist | ||
* Goal: Train curators in using the GitHub Repositories and Protege software for ontology curation - collect their feedback | * Goal: Train curators in using the GitHub Repositories and Protege software for ontology curation - collect their feedback | ||
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** Any of the CO curators are ready to be involved in ontology development | ** Any of the CO curators are ready to be involved in ontology development | ||
==3. Ontology Curation and Data Annotation== | ===3. Ontology Curation and Data Annotation=== | ||
* '''Planteome Vision: Distributed ontology development and maintenance''' | * '''Planteome Vision: Distributed ontology development and maintenance''' | ||
* Wants a group of ontology developers to meet face-to-face | * Wants a group of ontology developers to meet face-to-face | ||
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** legumes- soybean, Medicago (Rex Nelson), peanut, lentils (Scott Kalber) | ** legumes- soybean, Medicago (Rex Nelson), peanut, lentils (Scott Kalber) | ||
** tubers- cassava (Afola Agbona, [http://www.iita.org/ IITA]), potato (Reinhard Simon) and sweet potato (Vilma Huela): both from CIP | ** tubers- cassava (Afola Agbona, [http://www.iita.org/ IITA]), potato (Reinhard Simon) and sweet potato (Vilma Huela): both from CIP | ||
** wheat, rice and maize | ** wheat, rice and | ||
** maize Mary Schaeffer | |||
==Logistics:== | ==Logistics:== | ||
* | * Location: Oregon State University Corvallis- plan to fly into Portland (PDX) ~1.5hrs drive, or Eugene (EUG) ~ 50 mins drive | ||
** Hut Shuttle service from Portland Airport: http://www.hutshuttle.com/ | ** Hut Shuttle service from Portland Airport: http://www.hutshuttle.com/ | ||
===Accommodations: === | |||
* On campus housing is available in dorm-style suites at [http://oregonstate.edu/uhds/bloss Bloss Hall] (on-campus) | |||
* Private room with shared bathroom facility (separate men's and women's). | |||
** Link to more information about the facilities: [http://oregonstate.edu/uhds/scholar-housing Scholar Housing- OSU] | |||
* Link to information about hotels in Corvallis: [http://www.tripadvisor.com/Hotels-g51817-Corvallis_Oregon-Hotels.html Corvallis_Oregon-Hotels]. | |||
** Closest hotel to campus is the [http://hiltongardeninn3.hilton.com/en/hotels/oregon/hilton-garden-inn-corvallis-CVOCHGI/index.html Hilton Garden Inn] | |||
===Other info=== | |||
Dates of OSU Home Games: http://www.osubeavers.com/SportSelect.dbml?SPSID=750125&SPID=127145 | Dates of OSU Home Games: http://www.osubeavers.com/SportSelect.dbml?SPSID=750125&SPID=127145 | ||
Latest revision as of 20:02, 22 October 2015
Note: This page is under development, so check back frequently
See link to Planteome Curation Workshop Webpage
Dates: Week of Monday, Nov. 9th to Friday Nov. 13th
- People could arrive Sunday Nov 8th. See below for more info on the logistics
- Who should attend? Planteome Ontology team: developers and software team and experts from various crops
- Barry Smith- (will attend Nov 9th-10th)
- Dennis will attend remotely on Mon Nov 9th and Tues Nov 10th
- Chris Mungall and Seth Carbon
- Marie-Angelique LaPorte
- LC, JE, AM
- Not able to attend: Elizabeth, George and John
- Will invite the CO curators who are interested, can have another session at the PAG meeting for those who cannot attend
Goals and Agenda of the meeting
1. Strategic Planning
- Goal: Form a strategic plan on how to build each ontology and how they fit together in the Planteome
- Who: Core Ontology Working Group:
- PJ, LC, AM, JE, DWS, CM, BS, EA, MAL, GG, SC
2. GitHub, TermGenie and Protege Training
- Lead by Chris Mungall, Marie-Angelique can assist
- Goal: Train curators in using the GitHub Repositories and Protege software for ontology curation - collect their feedback
- Jenkins and Continuous integration
- Who: Ontology Curators
- Planteome team: LC, AM, MAL, NYBG postdoc?, GG postdoc?, OSU undergrad students- Megan and Ethan
- Any of the CO curators are ready to be involved in ontology development
3. Ontology Curation and Data Annotation
- Planteome Vision: Distributed ontology development and maintenance
- Wants a group of ontology developers to meet face-to-face
- Get curators together for some hands-on development and Data Annotation
- Possible Ontology Developers- collaborators to be included based on areas of focus- maybe a dedicated group for each crop group?
- legumes- soybean, Medicago (Rex Nelson), peanut, lentils (Scott Kalber)
- tubers- cassava (Afola Agbona, IITA), potato (Reinhard Simon) and sweet potato (Vilma Huela): both from CIP
- wheat, rice and
- maize Mary Schaeffer
Logistics:
- Location: Oregon State University Corvallis- plan to fly into Portland (PDX) ~1.5hrs drive, or Eugene (EUG) ~ 50 mins drive
- Hut Shuttle service from Portland Airport: http://www.hutshuttle.com/
Accommodations:
- On campus housing is available in dorm-style suites at Bloss Hall (on-campus)
- Private room with shared bathroom facility (separate men's and women's).
- Link to more information about the facilities: Scholar Housing- OSU
- Link to information about hotels in Corvallis: Corvallis_Oregon-Hotels.
- Closest hotel to campus is the Hilton Garden Inn
Other info
Dates of OSU Home Games: http://www.osubeavers.com/SportSelect.dbml?SPSID=750125&SPID=127145