docs(phase-04): complete phase execution
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See: .planning/PROJECT.md (updated 2026-02-11)
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**Core value:** Produce a high-confidence, multi-evidence-backed ranked list of under-studied cilia/Usher candidate genes that is fully traceable — every gene's inclusion is explainable by specific evidence, and every gap is documented.
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**Current focus:** Phase 4 in progress — Scoring and Integration
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**Current focus:** Phase 4 complete — ready for Phase 5
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## Current Position
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Phase: 4 of 6 (Scoring and Integration)
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Plan: 3 of 3 in current phase (complete)
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Status: Phase 04 complete — CLI score command and comprehensive test coverage
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Last activity: 2026-02-11 — Completed 04-03-PLAN.md
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Phase: 4 of 6 (Scoring & Integration)
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Plan: 3 of 3 in current phase (phase complete)
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Status: Phase 4 complete — verified (14/14 must-haves, 5/5 requirements)
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Last activity: 2026-02-11 — Phase 4 verified and complete
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Progress: [████████░░] 75.0% (15/20 plans complete across all phases)
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## Session Continuity
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Last session: 2026-02-11 - Plan execution
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Stopped at: Completed 04-03-PLAN.md (CLI score command and comprehensive tests)
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Resume file: .planning/phases/04-scoring-integration/04-03-SUMMARY.md
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Last session: 2026-02-11 - Phase 4 execution
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Stopped at: Phase 4 complete and verified — all 3 plans executed, 14/14 must-haves verified
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Resume file: .planning/phases/04-scoring-integration/04-VERIFICATION.md
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