# Biological Inspiration

**Version**: v1.2.7 | **Status**: Active | **Last Updated**: March 2026

## Overview

Documentation exploring biological metaphors that inform the Codomyrmex architecture — myrmecology (ant science), swarm intelligence, stigmergy, eusociality, and free energy principles.

## Contents

| Document | Description |
|:---|:---|
| [eusociality.md](eusociality.md) | Eusociality and division of labor in agent systems |
| [evolution.md](evolution.md) | Evolutionary optimization and selection pressure |
| [free_energy.md](free_energy.md) | Free energy principle and active inference |
| [immune_system.md](immune_system.md) | Immune system metaphors for security and resilience |
| [memory_and_forgetting.md](memory_and_forgetting.md) | Memory consolidation and strategic forgetting |
| [metabolism.md](metabolism.md) | Metabolic analogies for resource management |
| [myrmecology.md](myrmecology.md) | Ant colony science and its mapping to code systems |
| [stigmergy.md](stigmergy.md) | Stigmergic coordination through environmental signals |
| [superorganism.md](superorganism.md) | Superorganism theory — the colony as single entity |
| [swarm_intelligence.md](swarm_intelligence.md) | Swarm intelligence algorithms and patterns |
| [symbiosis.md](symbiosis.md) | Symbiotic relationships between agents and tools |

## Coordination

- [AGENTS.md](AGENTS.md) — Agent coordination for this section
- [SPEC.md](SPEC.md) — Functional specification
- [PAI.md](PAI.md) — PAI infrastructure integration

## Navigation

- **Parent**: [docs/](../README.md)
- **Project Root**: [README.md](../../README.md)
