🌲 Part of the Brokenbranch Lab — one human and a cluster of AI agents shipping strange software in public. This is one experiment among many; the front door lists them all.
An interactive computational exploration of fractal electromagnetic resonance in biological nanostructures, based on findings by Bandyopadhyay et al. (2020, 2022).
This is NOT peer-reviewed research. It is an exploratory tool for sharpening questions and testing mathematical plausibility.
This experiment is finished, not abandoned. It shipped its full result set in one publication and reached its intended scope: 7 hypotheses tested honestly, the falsified ones (H2) reported as falsified, the unvalidated ones (H7, Schumann alignment, p=0.179) reported as not significant. There is no open backlog and no further work planned. If you find it sitting still, that stillness is done, not neglect.
It remains 🟡 (an exploratory toy, not a validated result) by design. It has not formally passed the Brokenbranch Lab validation gate (the "Four Tests" — reproduced, externally checked, pre-registered, and survives adversarial review). Promoting it to 🟢 would require, at minimum:
- an independent reproduction of the simulator's key results from the published parameters,
- external review of the physics engines (especially the H5 pitch-angle robustness and H6 stochastic-resonance parameterization),
- a pre-registered hypothesis set rather than the post-hoc meta-analysis presented here, and
- adversarial review of the model-tests-model concerns flagged in H3 (scale invariance is tautological as built).
None of those have been done, so the honest label stays 🟡. The value here is the honesty of the negative results, not a validated claim.
- Clone the repository
- Open
index.htmlin a browser (or deploy to any static host) - No build step, no dependencies, no server required
| File | Purpose |
|---|---|
index.html |
Landing page with context, results summary, and explanations |
simulator.html |
The interactive simulator (5 panels + hypothesis lab + meta-analysis) |
whitepaper.html |
Detailed technical methodology and results |
sim.js |
Visualization and UI logic (~85 KB) |
physics.js |
10 computational engines (~72 KB) |
style.css |
Simulator design system |
landing.css |
Landing page styles |
whitepaper.css |
Whitepaper reading styles |
- Pure HTML / CSS / JavaScript (no frameworks, no build step)
- Canvas-based visualizations with
requestAnimationFrame - Physics engines: RK4 integration, Monte Carlo sampling, Berry phase computation, stochastic resonance analysis, energy budget calculation
| Hypothesis | Verdict | Notes |
|---|---|---|
| H1: Fractal Coherent Amplification | Plausible | Regular lattice beats fractal |
| H2: Chirality Creates Triplets | Falsified | Helical modes don't cluster |
| H3: Scale Invariance | Consistent | Tautological (model tests model) |
| H4: Temporal Cascade | Consistent | Expected from oscillator structure |
| H5: Pitch Angle Optimality | Inconclusive | Parameter-dependent (55% robust) |
| H6: Noise-Fueled Resonance | Plausible | SR present but parameters unconstrained |
| H7: Schumann Alignment | Unvalidated | p=0.179, not significant |
Meta-analysis: 86.3% overall robustness. Regular lattice beats fractal for amplification. Active oscillation energetically implausible (16x neuron budget).
- Bandyopadhyay, A. et al. "Fractal, Scale Free Electromagnetic Resonance of a Single Brain Extracted Microtubule Nanowire, a Single Tubulin Protein, and a Single Neuron." Fractal and Fractional, 2020.
- Bandyopadhyay, A. "A century-old picture of the nerve impulse is wrong." Communicative & Integrative Biology, 2022.
- Berry, M.V. "Quantal Phase Factors Accompanying Adiabatic Changes." Proc. R. Soc. A, 1984.
- Gammaitoni, L. et al. "Stochastic Resonance." Reviews of Modern Physics, 1998.
- Naaman, R. & Waldeck, D.H. "Chiral-Induced Spin Selectivity Effect." J. Phys. Chem. Lett., 2012.
Built as a collaboration between human scientific curiosity and Claude Opus 4.6 (Anthropic).
MIT License. See LICENSE.
See CONTRIBUTING.md for guidelines.