ALIFE 2025 Proceedings Skill Skill

ALIFE 2025 Proceedings Skill

Status: ✅ Production Ready (Mathpix extracted) Trit: +1 (PLUS - generative/creative) Pages: 337 | Papers: 80+ | Figures: 153 | Equations: 100+

Paper Index (Selected)

| Page | Title | Theme | |------|-------|-------| | 1 | Chemical Computer (BZ oscillators) | Chemical Computing | | 5 | Institution Bootstrapping Problem | Social Simulation | | 9 | Mapping Road to Synthetic Ecosystems | Ecosystems | | 13 | Structural Cellular Hash Chemistry | Cellular Automata | | 17 | Evolutionary Advantage of Guilt | Evolution | | 25 | Stable Scalable Boid Patterns | Swarm Intelligence | | 37 | BUNCH: Hierarchical Filtering | Emergence Detection | | 49 | Hummingbird Kernel: Chaotic LV Sampling | Optimization | | 57 | Predictive-Coding Variational RNN | Free Energy Principle | | 61 | Neural Cellular Automata Dynamics | NCA | | 69 | Population of Thoughts: Open-Ended Evolution | LLM + Evolution | | 73 | Neural Cellular Automata: Cells to Pixels | NCA | | 77 | Petri Dish NCA | NCA | | 99 | Language Cellular Automata | NCA + NLP | | 103 | Lenia Parameter Space | Continuous CA | | 107 | Evolvable Chemotons | Autopoiesis | | 111 | Category Theory for Life | Category Theory | | 115 | Evolving Interaction Protocols | Open-Ended Evolution | | 127 | Swarm2Algo: Emergent → Distributed Algorithms | Swarm | | 135 | Open-Ended Evolution in Binary CA | Emergence | | 139 | Spark: Modular Spiking Neural Networks | Neural | | 151 | Non-Equilibrium Memories with NCA | NCA | | 163 | Temporal Memory in Swarm Reservoir | Reservoir Computing | | 173 | H-Lenia: Hierarchical Lenia | Continuous CA | | 177 | Emergent Patterns in Galactic Systems | Cosmology + ALife | | 195 | Neural Particle Automata | Particles | | 207 | Oscillatory Dynamics for Computation | Analog Computing | | 219 | Functional Information Decomposition | Information Theory | | 227 | Particle Life in Sierpinski Gasket | Fractals | | 231 | Meta-Neural Cellular Automata | Meta-learning | | 251 | Autotelic RL for Cellular Automata | RL + CA | | 255 | Developmental Pattern Formation | Morphogenesis | | 267 | Adversarial Environment for NCA | Adversarial | | 275 | Growing Neural Cellular Automata | Developmental | | 283 | Self-Organising Digital Circuits | Digital Morphogenesis | | 287 | Scaffolding via Morphogenetic Gradients | Development | | 295 | Swarm Size Estimation via Diffusion | Swarm | | 301 | Gridarians: LLM-Driven ALife | LLM + ALife | | 309 | UIUA: Array Language for ALife | Programming Languages |

Key Equations

Boid Flocking (Separation/Alignment/Cohesion)

\sum_{j} w_s(T_i, T_j) \frac{\vec{\xi}_{i,j}(t)}{|\vec{\xi}_{i,j}(t)|} + 
\sum_{j} w_a(T_i, T_j) \frac{\vec{v}_j(t) - \vec{v}_i(t)}{N_{a,i}} + 
\sum_{j} w_c(T_i, T_j) \frac{-\vec{\xi}_{i,j}(t)}{N_{c,i}}

Lotka-Volterra Dynamics (Chaotic Sampling)

\frac{dx_i}{dt} = x_i\left(r_i + \sum_{j=1}^{4} A_{ij} x_j\right)

Free Energy Minimization

\mathcal{F} = \underbrace{\sum_{t=1}^{T}\left[\sum_{l}^{L} \frac{\mathbf{w}^l}{R_z^l} \delta(l, r, t)\right]}_{\text{complexity}} - \underbrace{\frac{1}{R_X}\left[\sum_{t=1}^{T}\|\mathbf{X}_t - \overline{\mathbf{X}}_t\|_2^2\right]}_{\text{accuracy}}

H-Lenia Hierarchical Update

\left[\left[A_i^t + \Delta t G(K * A_i^t)\right]_0^1 + \sum_{j \in N(i)} k_{ji} \cdot E_{ji}^t(\Delta_{j \rightarrow i}^t)\right]_0^1

Lenia Growth Function

G_{\mu,\sigma}(x) = 2e^{-\frac{(x-\mu)^2}{2\sigma^2}} - 1

Neural Particle Automata

[\Delta x_i, \Delta S_i] = f_\theta(S_i, \tilde{S}_i, \nabla S_i, \nabla \rho_i)

Restricted Boolean Network

f_i = \left(\sum_j w_{ij} \cdot x_j\right) > 0

Reaction-Diffusion Laplacian

\nabla^2 Y_i \approx \frac{\sum_j Y_j - Y_i}{\Delta x} \propto J_{Y_{nb}}^Y - J_Y^Y

Information Synergy

I_{\text{syn}}(X \rightarrow Y) = I_{\text{tot}} - \sum_{i=1}^{n} I_{\text{ind}}(X_i)

Research Themes

1. Neural Cellular Automata (NCA)

From Cells to Pixels (Pajouheshgar et al.)
Petri Dish NCA (Zhang, Risi, Darlow)
Language Cellular Automata (Najarro et al.)
Growing NCA (Sato, Masumori, Ikegami)
Meta-NCA with Linear Attention

2. Lenia & Continuous CA

Visualizing Lenia Parameter Space
H-Lenia: Hierarchical Extension
Glider Equation for Asymptotic Lenia

3. Evolution & Open-Endedness

Open-Ended Evolution in Binary CA
Evolvable Chemotons
Population of Thoughts (LLM + Evolution)
Attack of the Clones (Diversity in GP)

4. Chemical Computing

BZ Oscillator Reservoir Computing
Chemical Computer Construction
Environmentally Driven Autocatalysis

5. Swarm Intelligence

Swarm2Algo: Emergent → Algorithms
Pheromone-mediated Ant Movement
Swarm Size Estimation
Temporal Memory in Swarm Reservoir

6. LLM + ALife

Gridarians: LLM-Driven ALife
LLM-Driven Social Behaviors
Strategy Extraction via LLM Annotation
Internalized Culture in LLM Societies

7. Category Theory & Formal Methods

Integrative Formulation via Category Theory
Functional Information Decomposition
UIUA Array Language for ALife

Extracted Resources

/Users/bob/ies/paper_extracts/alife2025/
├── ALIFE2025_full.md          # 925KB markdown
├── ALIFE2025_tex.zip          # 11MB LaTeX + images
├── tex_extracted/
│   └── fed660c6-.../
│       ├── *.tex              # 7283 lines LaTeX
│       └── images/            # 153 figures
└── conversion_status.json

Integration with Gay.jl

using Gay

# Assign deterministic colors to papers
function paper_color(title::String)
    seed = UInt64(0x414C494645)  # "ALIFE"
    Gay.color_at(hash(title) ⊻ seed, 1)
end

# GF(3) theme classification
THEMES = Dict(
    :nca => -1,        # MINUS: Structure-preserving
    :evolution => 0,   # ERGODIC: Process
    :emergence => +1   # PLUS: Novel patterns
)

Commands

just alife-toc              # Show table of contents
just alife-paper 42         # Get paper at page 42
just alife-equation "lenia" # Find Lenia equations
just alife-figure 15        # Get figure by number
just alife-theme "nca"      # List NCA papers

Citation

@proceedings{alife2025,
  title     = {Companion Proceedings of the Artificial Life Conference 2025},
  booktitle = {ALIFE 25: Ciphers of Life},
  editor    = {Witkowski, Olaf and Adams, Alyssa M. and Sinapayen, Lana and 
               Baltieri, Manuel and Khosravy, Mahdi},
  year      = {2025},
  pages     = {337}
}

Extraction: Mathpix PDF ID fed660c6-4d3d-4bb6-bb3c-f9b039187660 Source: /Users/bob/Downloads/ALIFE2025ProceedingsCompanion (1).pdf

Agent Skills: ALIFE 2025 Proceedings Skill

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