WormBase-Caltech Weekly Calls
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2012 Meetings
May 3, 2012
Curator Timestamps
- Determining what data was provided directly by curator vs. what was populated automatically (e.g. mapping scripts)
- Older data provided by curators that are no longer here will be problematic
- We should archive all data-processing scripts in GitHub
- Scripts can be made to create a unique timestamp that identifies that script after the fact
Interaction model change
- Pulling Variation, Transgene, Antibody, and Expr_pattern tags out of the Interactor_info hash and into the main model
- This was originally to be able to capture intragenic interactions
- The problem is the inherent disconnect between an interactor entity (e.g. gene) and these objects
- Making this change would force a post-curation mechanism that ties these entities together for intuitive data display
- Such a linking mechanism may be error prone, faulty, and potentially a headache for the web team
- Is there a better way to handle this type of data?
- Chris will discuss with Todd to see how much of a problem this would pose to the web team
May 17, 2012
Life_stage model
- Include species tag?
- Create an ontology of life stages for different species
- There are differences in nomenclature
- Include Matt Berriman and Mark Blaxter in conversation on this
- Could include species abbreviation as prefix: e.g. Ppa_L1, Cbr_L3, etc.