# BeeStack: An Evidence-Typed Scaffold for Whole-Colony Honeybee Simulation

**Daniel Ari Friedman** (2026) · *Zenodo*

[![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.20420557.svg)](https://doi.org/10.5281/zenodo.20420557)

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## Abstract

BeeStack is an executable, evidence-typed research scaffold for whole-colony simulation of the Western honey bee (Apis mellifera), organized as five layers (Body, Brain, Mind, Swarm, Niche). It pairs FlyBody/MuJoCo body and small-scene swarm renders with curated empirical BeeBrain datasets and reduced deterministic kernels, keeping fidelity a declared per-module property: every quoted number is traceable from configuration to artifact to manuscript, gaps are catalogued rather than hidden, and the validation rate is a config-band self-test measure, not a biological-realism score. This 1.0 release accompanies the manuscript 'BeeStack: An Evidence-Typed Scaffold for Whole-Colony Honeybee Simulation' and includes the combined PDF and the full source archive. Source: https://github.com/docxology/BeeStack

## Keywords

honeybee · Apis mellifera · active inference · simulation scaffold · swarm intelligence · niche construction · FlyBody · MuJoCo · antennal lobe · mushroom body · central complex · waggle dance · BEEHAVE · reproducible research

## Publication Details

| Field | Value |
|------|-------|
| **DOI** | [10.5281/zenodo.20420557](https://doi.org/10.5281/zenodo.20420557) |
| **Published** | 2026-05-27 |
| **Version** | 1.0 |
| **Zenodo record** | https://zenodo.org/records/20420557 |
| **GitHub release** | https://github.com/docxology/BeeStack/releases/tag/v1.0.0 |
| **Source repository** | https://github.com/docxology/BeeStack |

## Files

- `BeeStack_combined.pdf` - Zenodo PDF

## Citation

> Friedman, D. A. (2026). *BeeStack: An Evidence-Typed Scaffold for Whole-Colony Honeybee Simulation*. Zenodo. https://doi.org/10.5281/zenodo.20420557

## Related

- Zenodo record: https://zenodo.org/records/20420557
- GitHub release: https://github.com/docxology/BeeStack/releases/tag/v1.0.0
- Source repository: https://github.com/docxology/BeeStack
- [Full Bibliography](../../pages/BIBLIOGRAPHY.md) · [All Papers](../README.md)