# 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