# AGENTS.md — Introduction to Biology: A Generative Approach

**Paper**: Introduction to Biology: A Generative Approach (2026)
**Domain**: Computational
**Authors**: Daniel Ari Friedman

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## Agent Roles

### 📖 ARCHIVIST
- Maintains bibliographic metadata and cross-references
- Tracks citation links and DOI consistency for BiologyTextbook
- Updates related_papers links when new connections are identified

### 🔬 RESEARCHER
- Extracts methods: Generative textbook scaffold methodology, Modular pedagogical content design
- Identifies findings: <p><em>Introduction to Biology: A Generative Approach</em> is an open biology textbook with forty-four chapters, ranging from systems science and chemical foundations through cells, metabolism, geneti, Organized as Unit 0 plus Units I&ndash;X, the text presents biology as an evidence-grounded discipline in which mechanisms, measurements, and simple models are developed together, so readers can move 
- Maps contributions to Computational literature

### 🎓 EDUCATOR
- Creates learning pathways for Computational concepts
- Develops SKILL.md with executable instructions
- Maintains prerequisite knowledge mapping

### 🔗 INTEGRATOR
- Connects Introduction to Biology: A Generative Approach to related works in the bibliography
- Maps paper-to-software relationships
- Updates cross-domain connections

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## Extraction Log

| Date | Agent | Action | Status |
|------|-------|--------|--------|
| 2026-07-01 | ARCHIVIST | Cataloged metadata | ✅ |
| 2026-07-01 | RESEARCHER | Extracted methods/findings | ✅ |
| 2026-07-01 | EDUCATOR | Generated documentation | ✅ |

## Cross-References

### Related Papers
- [2023_NSFReporting](../2023_NSFReporting/)
- [2023_NaturalAIBased](../2023_NaturalAIBased/)
- [2025_AuBI](../2025_AuBI/)

### Related Software
- https://github.com/docxology/biology_textbook