Jan 21st, 2016 Ontology Working Group Meeting: Difference between revisions

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- Representatives from: CG centers (IITA, CIP, CIMMYT, IRRI) and Bioversity; INRA, IRD, LIRMM, USDA-ARS databases (SoyBase, MaizeGDB, GDR, PeanutBase, LegumeInfo), EBI, Transplant, ELIXIR Consortium, Rothamsted Research.
- Representatives from: CG centers (IITA, CIP, CIMMYT, IRRI) and Bioversity; INRA, IRD, LIRMM, USDA-ARS databases (SoyBase, MaizeGDB, GDR, PeanutBase, LegumeInfo), EBI, Transplant, ELIXIR Consortium, Rothamsted Research.


 
== Comments and feedback==
 
*Takeaways
 
- people are concerned about the GAF2 format
 
- hopefully will be expanding to more than 16 columns
- Comments and feedback?
- we will develop standards for conversion TO GAF2
- worry about having people download in GAF2
- need a few use-cases for questions that researchers will be trying to answer.
- figure out what format people want to download data in, allow for download in this format


= Update on browsers=  
= Update on browsers=  

Revision as of 19:47, 21 January 2016

Planteome Ontology WG Zoom Meeting

  • Date: Thursday Jan. 21st, 2016
  • Time: 8:15am PST (GMT-8)
  • Connection details: Join from PC, Mac, Linux, iOS or Android: Join from PC, Mac, Linux, iOS or Android: https://zoom.us/j/757453328
  • Attendees: LC, AM, JE, PJ, EA, MAL, BS, GG.

File:Ontology WG Meeting 1-21-2016 video.mp4

File:Ontology WG Meeting 1-21-2016 audio.m4a

Report on PAG 2016

  • strong emphasis on high throughput phenotyping, machine learning is hot right now
  • data standardization, field scale measurements
  • Utilization of ontologies for data annotation
  • everyone wants specialized ontologies for THEIR data, not something predefined

- we need to demonstrate how ontologies are useful.

Planteome Collaborators Workshop Monday Jan 11th

- http://planteome.org/outreach/workshops/PAG_2016

  • Goals of the Meeting:
    • Introduce the Planteome project and launch Planteome 1.0 beta
    • Provide an update on the progress of the collaboration with the Crop Ontology to map crop-specific trait dictionaries to the Reference Trait Ontology
    • Provide a summary report and overview of the Planteome Curators Workshop, held Nov 2015 in Corvallis, OR
    • Engage Planteome collaborators and the plant genomics community by demonstrating use cases of data annotation for rice, cassava and lentils
    • Seek engagement of the plant genomics community through tools and applications to integrate into your workflow
  • Who attended?

- 29 attendees (link to spreadsheet: Participants list CO-Planteome Meeting PAG 2016)

- Representatives from: CG centers (IITA, CIP, CIMMYT, IRRI) and Bioversity; INRA, IRD, LIRMM, USDA-ARS databases (SoyBase, MaizeGDB, GDR, PeanutBase, LegumeInfo), EBI, Transplant, ELIXIR Consortium, Rothamsted Research.

Comments and feedback

  • Takeaways

- people are concerned about the GAF2 format - hopefully will be expanding to more than 16 columns - we will develop standards for conversion TO GAF2 - worry about having people download in GAF2 - need a few use-cases for questions that researchers will be trying to answer. - figure out what format people want to download data in, allow for download in this format

Update on browsers

Issues being sorted out:



Upcoming meetings and workshops