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We develop a model-based methodology for integrating gene-set information with an experimentally-derived gene list. The methodology uses a previously reported sampling model, but takes advantage of natural constraints in the…

Methodology · Statistics 2015-06-02 Zhishi Wang , Qiuling He , Bret Larget , Michael A. Newton

When it comes to solving optimization problems with evolutionary algorithms (EAs) in a reliable and scalable manner, detecting and exploiting linkage information, i.e., dependencies between variables, can be key. In this article, we present…

Neural and Evolutionary Computing · Computer Science 2021-09-14 Arkadiy Dushatskiy , Marco Virgolin , Anton Bouter , Dirk Thierens , Peter A. N. Bosman

A new model for evolving Evolutionary Algorithms is proposed in this paper. The model is based on the Linear Genetic Programming (LGP) technique. Every LGP chromosome encodes an EA which is used for solving a particular problem. Several…

Neural and Evolutionary Computing · Computer Science 2021-09-28 Mihai Oltean

Ongoing progress in computational intelligence (CI) has led to an increased desire to apply CI techniques for the purpose of improving software engineering processes, particularly software testing. Existing state-of-the-art automated…

Neural and Evolutionary Computing · Computer Science 2023-02-16 Jarrod Goschen , Anna Sergeevna Bosman , Stefan Gruner

Gaussian Probability Path based Generative Models (GPPGMs) generate data by reversing a stochastic process that progressively corrupts samples with Gaussian noise. Despite state-of-the-art results in 3D molecular generation, their…

Machine Learning · Computer Science 2026-02-23 Jingxiang Qu , Wenhan Gao , Ruichen Xu , Yi Liu

This paper proposes Genetic Algorithm with Border Trades (GAB), a novel modification of the standard genetic algorithm that enhances exploration by incorporating new chromosome patterns in the breeding process. This approach significantly…

Machine Learning · Computer Science 2025-06-27 Qingchuan Lyu

Traditional stereo matching algorithms like Semi-Global Block Matching (SGBM) with Weighted Least Squares (WLS) filtering offer speed advantages over neural networks for UAV applications, generating disparity maps in approximately 0.5…

Computer Vision and Pattern Recognition · Computer Science 2025-12-08 Yida Lin , Bing Xue , Mengjie Zhang , Sam Schofield , Richard Green

Inspired by the effectiveness of genetic algorithms and the importance of synthesizability in molecular design, we present SynGA, a simple genetic algorithm that operates directly over synthesis routes. Our method features custom crossover…

Machine Learning · Computer Science 2026-03-03 Alston Lo , Connor W. Coley , Wojciech Matusik

We present a multi-purpose genetic algorithm, designed and implemented with GPGPU / CUDA parallel computing technology. The model was derived from a multi-core CPU serial implementation, named GAME, already scientifically successfully…

Instrumentation and Methods for Astrophysics · Physics 2015-01-30 Stefano Cavuoti , Mauro Garofalo , Massimo Brescia , Antonio Pescapé , Giuseppe Longo , Giorgio Ventre

Genetic algorithms based on natural selection and minimal fluctuations have been applied to model physical and biological systems. Critical exponents have been extracted via computational simulations of nucleation for colossal…

Mathematical Physics · Physics 2007-05-23 A. Barrañón , J. A. López , C. O. Dorso

Exploration of complex high-dimensional spaces presents significant challenges in fields such as molecular discovery, process optimization, and supply chain management. Genetic Algorithms (GAs), while offering significant power for creating…

Machine Learning · Computer Science 2025-12-01 Mani Valleti , Aditya Raghavan , Sergei V. Kalinin

We present a genetic algorithm developed (GA) to optimize molecular AF_6 cluster configurations with respect to their energy. The method is based on the Darvin's evolutionary theory: structures with lowest energies survive in a system of…

Atomic and Molecular Clusters · Physics 2007-05-23 Stoyan Pisov , A. Proykova

We propose a method, based on a Generalized Heisenberg Algebra (GHA), to reproduce the anharmonic spectrum of diatomic molecules. The theoretical spectrum generated by GHA allows us to fit the experimental data and to obtain the…

Chemical Physics · Physics 2009-11-11 J. de Souza , N. M. Oliveira-Neto , C. I. Ribeiro-Silva

We present a novel Auxiliary Truth enhanced Genetic Algorithm (GA) that uses logical or mathematical constraints as a means of data augmentation as well as to compute loss (in conjunction with the traditional MSE), with the aim of…

Neural and Evolutionary Computing · Computer Science 2020-10-23 Dhananjay Ashok , Joseph Scott , Sebastian Wetzel , Maysum Panju , Vijay Ganesh

Large Language Models (LLMs) excel at generating synthetic data, but ensuring its quality and diversity remains challenging. We propose Genetic Prompt, a novel framework that combines genetic algorithms with LLMs to augment synthetic data…

Computation and Language · Computer Science 2025-09-03 Guangzeng Han , Weisi Liu , Xiaolei Huang

Most genetic algorithms (GAs) used in literature to solve control problems are time consuming and involve important storage memory requirements. In fact, the search in GAs is iteratively performed on a population of chromosomes (control…

Optimization and Control · Mathematics 2019-03-12 M. Oulghelou , C. Allery

We introduce a novel class of localized atomic environment representations, based upon the Coulomb matrix. By combining these functions with the Gaussian approximation potential approach, we present LC-GAP, a new system for generating…

Machine Learning · Statistics 2016-12-07 James Barker , Johannes Bulin , Jan Hamaekers , Sonja Mathias

The computation of vibrational spectra of diatomic molecules through the exact diagonalization of algebraically determined matrixes based on powers of Morse coordinates is made substantially more efficient by choosing a properly adapted…

Chemical Physics · Physics 2016-09-28 Andrea Bordoni , Nicola Manini

We introduce a Gaussian approximation potential (GAP) for atomistic simulations of liquid and amorphous elemental carbon. Based on a machine-learning representation of the density-functional theory (DFT) potential-energy surface, such…

Materials Science · Physics 2017-03-08 Volker L. Deringer , Gábor Csányi

The protoplanetary discs of T Tauri and Herbig Ae/Be stars have been studied by using geometric disc models to fit their spectral energy distribution (SED). The simulations provide means to reproduce the signatures of different…

Astrophysics · Physics 2009-11-13 A. Hetem , J. Gregorio-Hetem