docs: create roadmap (6 phases)

.planning/STATE.md

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+# Project State
+
+## Project Reference
+
+See: .planning/PROJECT.md (updated 2026-02-11)
+
+**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.
+**Current focus:** Phase 1 - Data Infrastructure
+
+## Current Position
+
+Phase: 1 of 6 (Data Infrastructure)
+Plan: 0 of TBD in current phase
+Status: Ready to plan
+Last activity: 2026-02-11 — Roadmap created with 6 phases covering all 40 v1 requirements
+
+Progress: [░░░░░░░░░░] 0%
+
+## Performance Metrics
+
+**Velocity:**
+- Total plans completed: 0
+- Average duration: - min
+- Total execution time: 0.0 hours
+
+**By Phase:**
+
+| Phase | Plans | Total | Avg/Plan |
+|-------|-------|-------|----------|
+| - | - | - | - |
+
+**Recent Trend:**
+- Last 5 plans: None yet
+- Trend: No data
+
+*Updated after each plan completion*
+
+## Accumulated Context
+
+### Decisions
+
+Decisions are logged in PROJECT.md Key Decisions table.
+Recent decisions affecting current work:
+
+- Python over R/Bioconductor for rich data integration ecosystem
+- Weighted rule-based scoring over ML for explainability
+- Public data only for reproducibility
+- Modular CLI scripts for flexibility during development
+
+### Pending Todos
+
+None yet.
+
+### Blockers/Concerns
+
+None yet.
+
+## Session Continuity
+
+Last session: 2026-02-11 - Roadmap creation
+Stopped at: Roadmap and STATE files initialized, ready to plan Phase 1
+Resume file: None