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Despite tremendous progress, machine learning and deep learning still suffer from incomprehensible predictions. Incomprehensibility, however, is not an option for the use of (deep) reinforcement learning in the real world, as unpredictable…
pPython seeks to provide a parallel capability that provides good speed-up without sacrificing the ease of programming in Python by implementing partitioned global array semantics (PGAS) on top of a simple file-based messaging library…
ergodicity is an open-source Python library for computational work on stochastic dynamics, with particular emphasis on non-ergodicity, time-average behavior, heavy-tailed processes, and decision making under uncertainty. The package brings…
Medical imaging is an essential tool for diagnosing and treating diseases. However, lacking medical images can lead to inaccurate diagnoses and ineffective treatments. Generative models offer a promising solution for addressing medical…
The yaglm package aims to make the broader ecosystem of modern generalized linear models accessible to data analysts and researchers. This ecosystem encompasses a range of loss functions (e.g. linear, logistic, quantile regression),…
The genetic algorithm is an optimization procedure motivated by biological evolution and is successfully applied to optimization problems in different areas. A statistical mechanics model for its dynamics is proposed based on the…
Analyzing large datasets to select optimal features is one of the most important research areas in machine learning and data mining. This feature selection procedure involves dimensionality reduction which is crucial in enhancing the…
The problem of automatic software generation is known as Machine Programming. In this work, we propose a framework based on genetic algorithms to solve this problem. Although genetic algorithms have been used successfully for many problems,…
PyBADS is a Python implementation of the Bayesian Adaptive Direct Search (BADS) algorithm for fast and robust black-box optimization (Acerbi and Ma 2017). BADS is an optimization algorithm designed to efficiently solve difficult…
PANDA (Passing Attributes between Networks for Data Assimilation) is a gene regulatory network inference method that uses message-passing to integrate multiple sources of 'omics data. PANDA was originally coded in C++. In this application…
We introduce Genetic AI, a novel method for multi-objective optimization without external parameters or predefined weights. The method can be applied to all problems that can be formulated in matrix form and allows for a data-less training…
We use a genetic algorithm to construct Hadamard Matrices. The initial population of random matrices is generated to have a balanced number of +1 and -1 entries in each column except the first column with all +1. Several fitness functions…
The paper presents a solution for the problem of choosing a method for analytical determining of weight factors for a genetic algorithm additive fitness function. This algorithm is the basis for an evolutionary process, which forms a stable…
The compact genetic algorithm (cGA) is an non-elitist estimation of distribution algorithm which has shown to be able to deal with difficult multimodal fitness landscapes that are hard to solve by elitist algorithms. In this paper, we…
To facilitate flexible and efficient structural bioinformatics analyses, new functionality for three-dimensional structure processing and analysis has been introduced into PyCogent -- a popular feature-rich framework for sequence-based…
EC-KitY is a comprehensive Python library for doing evolutionary computation (EC), licensed under the BSD 3-Clause License, and compatible with scikit-learn. Designed with modern software engineering and machine learning integration in…
In recent years, with rising concerns for data privacy, Federated Learning has gained prominence, as it enables collaborative training without the aggregation of raw data from participating clients. However, much of the current focus has…
This paper describes PyOED, a highly extensible scientific package that enables developing and testing model-constrained optimal experimental design (OED) for inverse problems. Specifically, PyOED aims to be a comprehensive Python toolkit…
evortran is a modern Fortran library designed for high-performance genetic algorithms and evolutionary optimization. evortran can be used to tackle a wide range of problems in high-energy physics and beyond, such as derivative-free…
This note presents a simple and effective variation of genetic algorithm (GA) for solving RCPSP, denoted as 2-Phase Genetic Algorithm (2PGA). The 2PGA implements GA parent selection in two phases: Phase-1 includes the best current solutions…