---
description: Run native biomedical Deep Research in Antigravity using roles, rules, skills, workflows, source receipts, and explicit approval gates.
---

# Deep Research Native Workflow

Invoke as `/deep-research-native <topic or slug>`.

## Step 0: Load Operating Context

- Load `AGENTS.md`.
- Load `GEMINI.md`.
- Load `.agents/agents.md`.
- Load `.agents/rules/deep-research-antigravity.md`.
- Load `.agents/skills/antigravity-surface-adapter/SKILL.md`.
- Load `.agents/skills/method-selection/SKILL.md`.
- Load relevant quality skills: `search-strategy`, `source-quality`, `evidence-table`, `research-quality-gates`, `citation-manager`, `length-budget`, `output-hygiene`.

Gate: if the active model has not loaded the above files, stop and ask the user to restart or explicitly mention them.

## Step 1: Define The Research Problem

Act as Research Manager with Gemini 3 Flash.

Confirm:

- topic and slug
- report purpose
- target reader
- decision the report supports
- report type and expected length
- available input materials
- allowed search tools
- whether Python model-worker commands are forbidden or allowed

Create or confirm `projects/<slug>/` and phase folders. Create or update `projects/<slug>/continuation_state.json`. Use Python only for scaffolding if helpful.

Gate: do not continue if purpose, audience, and decision use are unclear.

## Step 2: Select Method

Ask the user to switch to Claude Opus 4.6 (Thinking).

Act as Phase 0-1 Strategist. Use `method-selection`.

Write a method decision note covering:

- selected method or method mix
- why it fits the scenario
- rejected methods and why
- evidence types required
- search routes by chapter or task axis
- expected artifacts

Save it as `phase1/method_decision.md` or embed the same content in `phase1/research_brief.md` with a clear heading.

Gate: do not default to McKinsey, MECE, or SCQA. Use them only when they fit the decision problem.

## Step 3: Phase 0-1 Framing

Still using Claude Opus 4.6 (Thinking), produce:

- `phase1/material_brief.md`
- `phase1/search_log.md`
- `phase1/method_decision.md`
- `phase1/assumptions.md`
- `phase1/framework.md`
- `phase1/research_brief.md`
- `phase1/research_brief.json`
- `phase1/unsupported_claims.md`

Rules:

- Hypotheses without evidence must be labeled as hypotheses.
- Every searched claim must have a search receipt.
- Each chapter must state method, core question, likely evidence, and falsification route.

Gate: pause for user approval before Phase 2.

## Step 4: Phase 2 Evidence And Drafting

Ask the user to switch to Gemini 3.1 Pro (Low).

Act as Evidence Analyst.

Produce:

- `phase2/task_cards.json`
- `phase2/search_log.jsonl`
- `phase2/sources.jsonl`
- `phase2/rejected_sources.jsonl`
- `phase2/claims_ledger.jsonl`
- `phase2/coverage_matrix.md`
- `phase2/packets/*.json`
- `phase2/chapter_briefs/*.json`
- `phase2/compressed_findings/*.json`
- `phase2/drafts/chXX.md`
- `phase2/unsupported_claims.md`

Rules:

- No tool receipt, no search claim.
- No source ID, no factual claim.
- Search snippets and AI summaries are leads only.
- Every packet must include `search_receipts`, `sources`, `evidence_spans`, `counter_evidence`, and `unsupported_claims`.
- Every core claim must be represented in `claims_ledger.jsonl`.
- Every chapter must pass a counter-search or falsification pass.
- Evidence gaps trigger delta retrieval before drafting or visible caveats if still unresolved.
- Draft chapters only from approved chapter briefs and compressed findings.

Gate: run `research-quality-gates`. Do not move to Phase 3 if packet evidence is missing, claim-ledger records are incomplete, unsupported claims are hidden, source independence is not tracked, or counter-evidence is absent.

## Step 5: Phase 3 Review

Ask the user to switch to Gemini 3.1 Pro (High).

Act as Chief Reviewer.

Produce `phase3/critique.md` with:

- go / rework / fail decision
- structural critique
- method fit critique
- evidence gap list
- counter-evidence critique
- claim-ledger audit
- coverage matrix audit
- source-audit table for at least 10 core facts
- rework task list if needed

If the critique finds a critical evidence gap, create delta-retrieve tasks instead of asking Phase 4 to paper over the gap.

Gate: pause for user decision after critique.

## Step 6: Phase 4 Finalization

Ask the user to switch to Claude Opus 4.6 (Thinking).

Act as Final Editor.

Produce:

- `phase4/final_zh.md`
- `phase4/editorial_notes.md`
- `phase4/final_fact_check.md`

Rules:

- Do not introduce new facts unless new sources and search logs are added first.
- Final facts must be a subset of verified or explicitly caveated `claims_ledger.jsonl` rows.
- Downgrade or mark claims that remain unsupported.
- Use deterministic rendering tools afterward for PDF/DOCX.

Gate: final output must pass citation and unsupported-claim review before rendering.