Ontology meeting 2023-01-30
Jump to navigation
Jump to search
- Group members: Pascale, Harold, Raymond, Val, Edith, Peter, Jim, Tanya, Karen, Kimberly, David, Chris, Paul
- Present: Pascale, Harold, Raymond, Val, Edith, Jim, Tanya, Karen, Kimberly, David, Chris, Peter, Paul
- Regrets:
Announcements
GOC consortium
- April 27th-29th, Padua, Italy
- If you plan to attend, please register ASAP.
geneontology.ticketleap.com/goc2023
password: goc2023
Annotation reviews at MGI
- Li (@LiNiMGI) will be replacing Harold for annotation tickets review.
- The group-contacts.csv file has been updated:
https://github.com/geneontology/go-site/blob/master/metadata/group-contacts.csv
Editors discussion items
introduce Molecular Event class to GOPlus
Close? https://github.com/geneontology/go-ontology/issues/19960
Script to download annotations
https://github.com/geneontology/simple-report-system
- Create New issue
- Paste GO term(s) (1 or many)
- Select report using the labels:
- "direct_ann_to_list_of_terms": all direct EXP annotations to the terms entered
- "reg_ann_to_list_of_terms": all EXP annotations to the term entered, plus all children (including regulates children)
- Navigate to the reports (can also go via the simple-report-system link at the top
- Select the report that corresponds to the ticket number
- Copy to clipboard - best to do it from "edit" mode (for Pascale - mac + firefox)
- Make a copy of the New Annotation Review Template
- Paste annotations
- Results: copying from edit mode versus 'normal': https://docs.google.com/spreadsheets/d/1Tbnpc-rDzIgjacEc6vs5eHU6EU2zvQTJjilF3HstrCE/edit#gid=0
- Sort by Assigned by, then by reference
- NOTE: If you dont add the label AT ISSUE CREATION it doesnt work (to be confirmed)
- It might be nice to get another report: number of EXP, IEA, Others, for a list of GOIDs, showing 0 for terms with no annotations
Update missing MetaCyc2GO mappings for SGD YeastPathways
Jim, Chris https://github.com/geneontology/go-ontology/issues/24597
Bulk updates
Obsoleting large sets of terms
Obsolete BPs "regulation MF"
https://github.com/geneontology/go-ontology/projects/34?add_cards_query=is%3Aopen