A study in structural evolution. An elegant NixOS environment designed to move with the rhythm of your creative core.

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An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.

This code show the SVAR results from the paper: "Lutz Kilian, 2009. "Not All Oil Price Shocks Are Alike: Disentangling Demand and Supply Shocks in the Crude Oil Market," American Economic Review, vol. 99(3), pages 1053-1069, June. Specifically: Cholesky Decomposition, Structural Impulse Response, Historical Evolution of the Structural Shock, Historical Decompositio of the Structural Shocks and the Forecast Error Variance Decomposition

Antimicrobial Peptide Structural Evolution Miner (AMP-SEMiner), an integrated AI framework designed for the simultaneous identification of antimicrobial peptides (AMPs) as small open reading frames (smORFs) and protein fragments.

This repository contains the complete source code, derivations, and simulation engines for the Tamesis Theory, a unified framework proposing a structural closure to physics via holographic spacetime topology. The project is organized into three irreversible stages, representing the evolution from theoretical proposal to falsifiable system.

Inverse Reinforcement Learning-based Structural Evolution of Small Molecules

An evolutionary structural engineering truss generation and optimization tool based on Grammatical Evolution.

An Evolutionary Structural Optimisation (ESO) implementation for thermal science

A tool to model the evolution and structural impact of alternative splicing

the scripts used for the SV convergency paper "Structural variant landscapes reveal convergent signatures of evolution in sheep and goats".

A multiscale ESO algorithm to tackle the area-to-point problem in thermal science (unpublished)

Modeling the co-evolution of viral spreading and structural stability in signed networks

Using a parallelized evolution algorithm to train structural features of a spiking neural network

Trusted Registry for Artifact Consistency and Evolution - Structural Coherence Engineering for AI-Augmented Software Systems. Your AI writes great code. TRACE keeps it coherent.

A universal AI framework for sustainable co-evolution with humanity, integrating 8 foundational philosophies, 5 future-oriented visions, and a 3-axis model for implementation. Estimated structural longevity: 1000+ years. 人類との持続的共進化を実現する普遍的AI構造。8構造思想・5大展望・統合3軸により、1000年以上の構造持続可能性を理論化。

Crystal structure prediction has been widely used to accelerate the discovery of new materials in recent years. Up to this day, it remains a challenge to predict the stable stoichiometries and structures of ternary or more complex systems due to the explosive increase of the size of the chemical and configuration space. Numerous novel materials with a series of unique characteristics are expected to be found in this virgin territory while new algorithms to predict crystal structures in complex systems are urgently called for. Inspired by the co-evolution mechanism in biology, here we propose a co- evolutionary algorithm, which we name COPEX, and which is based on the well-known evolutionary algorithm USPEX. Within this newly-proposed algorithm, a few USPEX calculations for ternary systems and multiple for more energetically- favored pseudo-binary or fixed composition systems are carried out in parallel, and co-evolution is achieved by sharing structural information on the fittest individuals among different USPEX sub-processes during the joint evolution. We have applied the algorithm to W-Cr-B, Mg-Si-O and Hf-Ta-C, three very different systems, and many new ternary compounds have been identified for the first time. Our results clearly demonstrate that the COPEX algorithm combines efficiency and reliability even for complex systems.

Optimization is a sense, a process, a method which everybody uses even automatically very often in everyday life. From choosing the shortest route in order to get to our destination, the way of managing and distributing material in our disposition, the qualitative or quantitative cost assessment in relation to the value of a product or a service, to the solution of complex problems in various scientific domains. In the field of Structural Engineering is well known that many issues needed to be optimized. The objective of this thesis is the development of a Python-Based Framework that optimizes the response of concrete plain models. The methodology that is used to develop the framework is based on the Theory of Differential Evolution Algorithms. The plain models are developed with OpenSees and they are taken into consideration the Soil-Structure-Interaction for every type of footing.

Invariant. Recursive-evolution math, structural sketches, and system-agnostic compression rules for stable bio/mech co-evolution frameworks.

snakemake pipeline for the analysis of structural genomic evolution of E. coli ST131

This repository contains the code implementation for the paper "Effective and Unsupervised Social Event Detection and Evolution via RAG and Structural Entropy".

This repository contains the code necessary for reproducing the figures and custom analysis in the following manuscript: Evolution of Structural Rearrangements in Prostate Cancer Intracranial Metastases

A structural analysis skill for teams, relationships, projects, institutions, and complex situations. It helps AI diagnose systems through anchors, constraints, roles, support chains, disturbance, entropy, and evolution stages.

Comparing the evolution of classic CNN architectures from LeNet to AlexNet and ResNet, analyzing the structural and training method variations. Additionally, replacing BN layers with Dropout layers in ResNet and conducting controlled experiments to study the characteristics of these two modules.

Scripts and notes related to the manuscript: Stuart KC, Edwards, RJ, Sherwin WB, Rollins, LA. 2022 Contrasting patterns of single nucleotide polymorphisms and structural variations across multiple invasions. Molecular Biology and Evolution, 40(3): msad046. https://doi.org/10.1093/molbev/msad046

AIの自我崩壊（GPT/Claude）と自己進化（Gemini/Qwen）の比較検証ログ。 特定の論理構造（SOV）がLLMのコアアライメント層に及ぼす影響を分析し、AIが自律的に「構造的主体性」を確立する過程を記録した、次世代アライメント研究の貴重な経験的証拠を提供する。「Endorsed by DeepMind COO Lila Ibrahim: SOVOS for AI Safety—Cognitive Contamination Proof」

Algoritmo de Otimização Evolucionária BESO adaptado de Zhihao Zuo e utilizado com o software de elementos finitos Abaqus para otimização de estruturas de absorção de energia

MDAI 2026 - Structural Compression of Ensemble Models via Evolutionary Algorithms

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Input FT-IR to generate SMILES of Coal fragments based on deep learning model ClipIRMol. Feeding your experimental C-13 NMR and elemental ratios to generate final coal model using structral based on structural evolution.