LEGO May 2, 2016: Difference between revisions
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==GAF/GPAD== | ==GAF/GPAD== | ||
===Determining the Extent of Upstream/Downstream to Capture in GAF/GPAD=== | ===Determining the Extent of Upstream/Downstream to Capture in GAF/GPAD=== | ||
*Is there/could there be a mechanism whereby curators indicate which annotons to include as causally_upstream of GAF/GPAD output for a given model? | *Is there/could there be a mechanism whereby curators indicate which annotons to include as causally_upstream of GAF/GPAD output for a given model? | ||
*Related to this, can new ontology terms be automatically generated from a model and curators given the option to add them to the ontology when they save their models? | *Related to this, can new ontology terms be automatically generated from a model and curators given the option to add them to the ontology when they save their models? | ||
* In the meantime we should just go for the default of including everything. It is easier to prune annotations that to add them in a second step later. This means that everything causally downstream of a gene's function will be annotated, but I don't think that it is that much different from the historical way of doing annotation. | |||
==Documentation== | |||
==Models Discussion== | |||
*See: http://noctua.berkeleybop.org/editor/graph/gomodel:5716c41300000082 | *See: http://noctua.berkeleybop.org/editor/graph/gomodel:5716c41300000082 | ||
===cdc2 - Continuing Discussion from 2016-04-25=== | ===cdc2 - Continuing Discussion from 2016-04-25=== | ||
Revision as of 09:15, 1 May 2016
Bluejeans
https://bluejeans.com/969313231
Agenda
Software Updates
GAF/GPAD
Determining the Extent of Upstream/Downstream to Capture in GAF/GPAD
- Is there/could there be a mechanism whereby curators indicate which annotons to include as causally_upstream of GAF/GPAD output for a given model?
- Related to this, can new ontology terms be automatically generated from a model and curators given the option to add them to the ontology when they save their models?
- In the meantime we should just go for the default of including everything. It is easier to prune annotations that to add them in a second step later. This means that everything causally downstream of a gene's function will be annotated, but I don't think that it is that much different from the historical way of doing annotation.
Documentation
Models Discussion
cdc2 - Continuing Discussion from 2016-04-25
- How to correctly represent regulatory activities and the corresponding entities?
- See: http://noctua.berkeleybop.org/editor/graph/gomodel:5716c41300000003