What is DNA Extraction?
DNA extraction analyzes all processed materials from an expert and extracts their cognitive patterns across 5 knowledge layers:For best results, process 3-5 materials from the same expert before DNA extraction.
Prerequisites
Before extracting DNA:Required Artifacts
Required Artifacts
✓ Processed Materials
- At least 1 material processed through pipeline
- Recommended: 3-5 materials for rich DNA
knowledge/dossiers/persons/DOSSIER-[PERSON].md
- Insights in
INSIGHTS-STATE.jsonfor the person
- Chunks in
CHUNKS-STATE.jsonwith chunk_ids
Extraction Command
Basic Extraction
- Successful Extraction
- Insufficient Data
DNA Layer Examples
Layer 3: Heuristics (Most Valuable)
Weight Calculation System
How Weights Are Calculated
How Weights Are Calculated
Base weight: 0.50Bonuses:Usage threshold:
- +0.15 → Direct quote with chunk_id
- +0.15 → Appears in 2+ different sources
- +0.10 → Has numeric threshold
- +0.10 → Appears in 3+ sources
- +0.05 → Found in NARRATIVES context
- +0.05 → Uses prescriptive language
- -0.20 → Inferred (not direct quote)
- -0.15 → Contradicts another item
- -0.10 → Ambiguous context
- Items with weight < 0.70 are NOT used in agent responses
- Only high-confidence knowledge is actionable
Creating the Agent
After DNA extraction, the agent files are automatically created:Agent Structure
Querying the Mind Clone
Once created, interact with the expert:DNA Quality Metrics
- High Quality DNA
- Medium Quality DNA
- Low Quality DNA
Indicators:
- ✓ 15+ items extracted
- ✓ 5+ heuristics with numeric thresholds
- ✓ Average weight ≥ 0.70
- ✓ 80%+ items have chunk_ids
- ✓ Multiple sources (3+)
- ✓ Low contradiction rate
Viewing DNA
Visualize the extracted DNA:- All 5 layers with item counts
- Weight distribution
- Source coverage
- Chunk_id traceability
- Contradiction warnings
- Quality score
Updating DNA
As you process more materials, DNA enriches automatically:Auto-Update Check
Pipeline Phase 8.1.8 automatically:
- Checks DNA density (items per layer)
- If density ≥ 3/5 layers AND DNA exists → UPDATE
- If density ≥ 3/5 layers AND DNA missing → CREATE
Best Practices
Start with Quality
Process 3-5 high-quality materials before extraction
Verify Heuristics
Focus on Layer 3 - heuristics are most actionable
Check Chunk IDs
Ensure 100% traceability to sources
Review Weights
Items < 0.70 won’t be used by agents
Next Steps
Use the Mind Clone
Learn how to query and interact with created agents
Multi-Agent Deliberation
Combine multiple expert perspectives in Conclave sessions
