Annotation Conf. Call 2017-01-10: Difference between revisions
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=Minutes= | =Minutes= | ||
On call: Alice, Chris, David H., George, Giulia, Harold, Helen, Karen, Kimberly, Melanie, Midori, Moni, Penelope, Petra, Ruth, Sabrina, Val | On call: Alice, Chris, David H., George, Giulia, Harold, Helen, Karen, Kimberly, Melanie, Midori, Moni, Penelope, Petra, Rachael, Ruth, Sabrina, Val | ||
Regrets: Paola | Regrets: Paola |
Revision as of 12:02, 10 January 2017
Bluejeans
- https://bluejeans.com/993661940
- to join via phone: enter Meeting ID 993661940 after dialing in
- from US: +1.408.740.7256 or +1.888.240.2560
- from UK: +44.203.608.5256
- from Switzerland: +41.81.588.0256
Agenda
Next Consortium Meeting
- June 1-3, 2017
- The regular meeting will be followed by two optional workshop days on LEGO and Reactome curation on June 4 and 5
- Pankaj Jaiswal has graciously offered to host the meeting at Oregon State University in Corvallis, Oregon
- He has set up a really nice meeting webpage at https://sites.google.com/view/goc2017
- Please register!
Review of Jenkins Pipeline
- GAF checks
- Annotation Rules and Error Files
- Jenkins GAF checks with red status cannot be inspected
- Jenkins builds that fail do not display the most recent errors file, so curators can't check what needs to be fixed
- GOA annotation checks on GAFs are more stringent than Jenkins checks (should be same?)
- Annotation QC checks employed by GOA and Jenkins should be in sync
- Convert old annotation_qc.xml
- Jenkins GAF checks with red status cannot be inspected
- Inferred annotations (annotations created by logical inference)
- Inter-ontology links
- Annotations inferred from annotation extensions (fold-based predictions)
- Source: GOC-OWL
- GOC-OWL inference pipeline concerns
- Annotations are now being generated from 'folded' terms
- Concerns about:
- evidence code used
- qualifiers
- redundancy with existing manual annotations
- misuse of AEs leading to erroneous assertions
- Change assigned_by for GOC OWL inferences to be able to distinguish from F-P
- Evidence Codes used for Inferred Annotations
- Annotation Rules and Error Files
Working Groups
- At the November 2016 USC meeting, we agreed to establish working groups for several topics.
- If they haven't already, groups need to set up meeting schedule and agendas
- Annotation Guidelines for High Throughput Experiments
- Helen Attrill (FB)
- Stacia Engel (SGD)
- Pascale Gaudet (SIB)
- Ruth Lovering (UCL)
- Kimberly Van Auken (WB)
- Working group to finalize transcription decision tree
- Marcio Acencio (NTNU)
- Karen Christie (MGI)
- Rachael Huntely (UCL)
- Working group to review use of ECO codes
- David Hill (MGI)
- Note also that there is an ECO workshop at this year's ISB meeting
- Annotation Guidelines for High Throughput Experiments
LEGO Modeling Discussions
- We would like to reserve the second Tuesday annotation call of each month for discussion of LEGO modeling.
- The proposal is to have two presenters each month for an ~30 minute discussion of their model.
- The goal is to get more people comfortable with LEGO modeling and increase the number of processes represented by LEGO models in GO.
- Please sign-up for a time slot here: LEGO Discussion Rota
- We would like to do this on a volunteer basis, so please consider taking a turn.
- We all benefit from discussing modeling issues from across a broad spectrum of organisms, and there is likely commonality amongst the pathways and processes that we are trying to represent.
Minutes
On call: Alice, Chris, David H., George, Giulia, Harold, Helen, Karen, Kimberly, Melanie, Midori, Moni, Penelope, Petra, Rachael, Ruth, Sabrina, Val
Regrets: Paola