Ontology workshop Jan 2013: Difference between revisions

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departing SFO on Tue. Jan. 29th at 9:10pm (UA8882).
departing SFO on Tue. Jan. 29th at 9:10pm (UA8882).


Jane
 
Jane:


arriving SFO on Sat. Jan. 26th at 5.25pm (AA6190);  
arriving SFO on Sat. Jan. 26th at 5.25pm (AA6190);  


departing SFO on Tue. Jan. 29th at 7.45pm (AA6189).
departing SFO on Tue. Jan. 29th at 7.45pm (AA6189).

Revision as of 12:43, 10 January 2013

Dates: Sun Jan 27 - Tue Jan 29 of 2013 (*FINAL*)

Location: CA

Attendees:

  • Chris (Local - LBL)
  • Heiko (Local - LBL)
  • Suzi (Local - LBL)
  • Tanya (Local - Carnegie - guest pass & parking permit organized)
  • David (staying local)
  • Paola
  • Jane
  • Judy

Agenda Item Scratchpad:

Transition to OWL

See Transition to OWL

  • Review/refresher on Hinxton_OBO-Edit/Protege_4_workshop_Jan_2012
    • How to update GO external disjointness axioms
    • Debugging tips - understanding Jenkins pipeline, etc
    • How to update GO extensions (x-signaling, x-plant-anatomy, ...)
  • Some updates on obo/owl tools
    • Oort updates
    • New relevant protege plugins since Hinxton (Heiko to provide links)
      • Jim Balhoff's obo-lint P4 plugin
      • Jim Balhoff's obsoletion-util p4 plugin
      • Jim Balhoff's depictions plugin
      • Heiko's OE GV plugin for p4
      • Any more? What would people like?
  • Exercises
    • Try day to day editing tasks in P4, convert to obo, commit
    • Editing CL in OWL?
  • Create Wishlist/feature/tool requests

Content

  • Signaling?
  • F-P links
  • incorporation of column16 relationships into ontology terms
  • add disjoint axioms
  • identify new templates

Additional material

List any new material, papers etc of interest published since Hinxton

Papers to write

  • Target JBMS issue? Primarily for 'ontologist-centric' papers.
    • SAO/CC integration? General update on CC ontology?
  • Content-specific papers - target bio journals - integrate with annotation
    • Kidney
    • Signaling?
  • Tools
    • Oort
    • TermGenie

LOGISTICS

Meeting room

Accommodation

Travel

Paola:

arriving SFO on Sat. Jan. 26th at 7:15pm (UA8883);

departing SFO on Tue. Jan. 29th at 9:10pm (UA8882).


Jane:

arriving SFO on Sat. Jan. 26th at 5.25pm (AA6190);

departing SFO on Tue. Jan. 29th at 7.45pm (AA6189).