usher-exploring

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gbanyan 0e389c7e41 feat(03-05): implement animal model evidence fetch and transform

- models.py: AnimalModelRecord with ortholog confidence, phenotype flags, and normalized scoring
- fetch.py: Retrieve orthologs from HCOP, phenotypes from MGI/ZFIN/IMPC with retry
- transform.py: Filter sensory/cilia-relevant phenotypes, score with confidence weighting
- Ortholog confidence: HIGH (8+ sources), MEDIUM (4-7), LOW (1-3)
- Scoring: mouse +0.4, zebrafish +0.3, IMPC +0.3, weighted by confidence
- NULL preservation: no ortholog = NULL score (not zero)

2026-02-11 19:00:24 +08:00

.planning

docs(03): create phase plan

2026-02-11 18:46:28 +08:00

config

feat(01-01): create Python package scaffold with config system

2026-02-11 16:24:35 +08:00

src/usher_pipeline

feat(03-05): implement animal model evidence fetch and transform

2026-02-11 19:00:24 +08:00

tests

test(02-02): add comprehensive gnomAD integration tests