PAINT database update pipeline
Summary Google doc
https://docs.google.com/document/d/1Tx3DGLanQ1P6vBL6FWH5V5M7nVqCCCsqu-6m61jPtQ4/edit?usp=sharing
Import EXP files
- File location:
http://geneontology.org/gene-associations/*.gaf.gz
Import ontology
- File location:
http://geneontology.org/ontology/go.obo
Integration with existing PAINT annotations
- Managing differences:
- Missing EXP evidence
- New exp evidence
(see for ex https://github.com/pantherdb/fullgo_paint_update/issues/10)
- Handling obsolete and merged terms
- obsolete terms: a) has a 'replaced_by' tag -> replace to the new term b) does not have a 'replaced_by' tag -> output message xxx
- etc ?
- List of messages for automatic changed: 'Comment' ('Update comment' in PAINT interface)
- What types of messages ? obsoletes, missing EXP... what else ?
- 'View omitted annotation information' -> generated on the fly ???
- What types of messages ? tree changes information (missing nodes) - what else ?