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Phylogenetic mixture models, in which the sites in sequences undergo different substitution processes along the same or different trees, allow the description of heterogeneous evolutionary processes. As data sets consisting of longer…

Populations and Evolution · Quantitative Biology 2012-07-17 Elizabeth S. Allman , John A. Rhodes , Seth Sullivant

Numerous traits under migration-selection balance are shown to exhibit complex patterns of genetic architecture with large variance in effect sizes. However, the conditions under which such genetic architectures are stable have yet to be…

Populations and Evolution · Quantitative Biology 2022-11-01 Léonard Dekens , Sarah P. Otto , Vincent Calvez

Evolutionary processes proved very useful for solving optimization problems. In this work, we build a formalization of the notion of cooperation and competition of multiple systems working toward a common optimization goal of the population…

Neural and Evolutionary Computing · Computer Science 2007-05-23 Mark Burgin , Eugene Eberbach

The inheritance of characteristics induced by the environment has often been opposed to the theory of evolution by natural selection. Yet, while evolution by natural selection requires new heritable traits to be produced and transmitted, it…

Populations and Evolution · Quantitative Biology 2015-06-18 Olivier Rivoire , Stanislas Leibler

We have simulated the evolution of sexually reproducing populations composed of individuals represented by diploid genomes. A series of eight bits formed an allele occupying one of 128 loci of one haploid genome (chromosome). The…

Genomics · Quantitative Biology 2009-11-04 S. Cebrat , D. Stauffer , J. S. Sa Martins , S. Moss de Oliveira , P. M. C. de Oliveira

Evolutionary computation algorithms are increasingly being used to solve optimization problems as they have many advantages over traditional optimization algorithms. In this paper we use evolutionary computation to study the trade-off…

Neural and Evolutionary Computing · Computer Science 2009-11-10 Matthew J. Berryman , Wei-Li Khoo , Hiep Nguyen , Erin O'Neill , Andrew Allison , Derek Abbott

The amplification cycle of many replicators (natural or artificial) involves the usage of a host compartment, inside of which the replicator express phenotypic compounds necessary to carry out its genetic replication. For example, viruses…

Populations and Evolution · Quantitative Biology 2019-07-03 Anton S. Zadorin , Yannick Rondelez

Multi-label classification consists in classifying an instance into two or more classes simultaneously. It is a very challenging task present in many real-world applications, such as classification of biology, image, video, audio, and text.…

Machine Learning · Computer Science 2020-04-03 Thiago Zafalon Miranda , Diorge Brognara Sardinha , Márcio Porto Basgalupp , Yaochu Jin , Ricardo Cerri

This article is devoted to applications of projection operators to simulate phenomenological properties of the molecular-genetic code system. Oblique projection operators are under consideration, which are connected with matrix…

Other Quantitative Biology · Quantitative Biology 2017-08-10 Sergey Petoukhov

The balance between convergence and diversity is a key issue of evolutionary multi-objective optimization. The recently proposed stable matching-based selection provides a new perspective to handle this balance under the framework of…

Neural and Evolutionary Computing · Computer Science 2017-01-26 Mengyuan Wu , Ke Li , Sam Kwong , Yu Zhou , Qingfu Zhang

Theoretical studies on evolutionary algorithms have developed vigorously in recent years. Many such algorithms have theoretical guarantees in both running time and approximation ratio. Some approximation mechanism seems to be inherently…

Neural and Evolutionary Computing · Computer Science 2022-10-04 Yaoyao Zhang , Chaojie Zhu , Shaojie Tang , Ringli Ran , Ding-Zhu Du , Zhao Zhang

Recently, it has been proven that evolutionary algorithms produce good results for a wide range of combinatorial optimization problems. Some of the considered problems are tackled by evolutionary algorithms that use a representation which…

Neural and Evolutionary Computing · Computer Science 2013-01-18 Benjamin Doerr , Anton Eremeev , Frank Neumann , Madeleine Theile , Christian Thyssen

When setting up field experiments, to test and compare a range of genotypes (e.g. maize hybrids), it is important to account for any possible field effect that may otherwise bias performance estimates of genotypes. To do so, we propose a…

Neural and Evolutionary Computing · Computer Science 2019-07-23 Vitaliy Feoktistov , Stephane Pietravalle , Nicolas Heslot

Exploration of task mappings plays a crucial role in achieving high performance in heterogeneous multi-processor system-on-chip (MPSoC) platforms. The problem of optimally mapping a set of tasks onto a set of given heterogeneous processors…

Performance · Computer Science 2014-07-01 Wei Quan , Andy D. Pimentel

Representations for black-box optimisation methods (such as evolutionary algorithms) are traditionally constructed using a delicate manual process. This is in contrast to the representation that maps DNAs to phenotypes in biological…

Neural and Evolutionary Computing · Computer Science 2024-07-08 Milton L. Montero , Erwan Plantec , Eleni Nisioti , Joachim W. Pedersen , Sebastian Risi

The ultimate goal of multi-objective optimisation is to help a decision maker (DM) identify solution(s) of interest (SOI) achieving satisfactory trade-offs among multiple conflicting criteria. This can be realised by leveraging DM's…

Neural and Evolutionary Computing · Computer Science 2019-10-01 Ke Li , Minhui Liao , Kalyanmoy Deb , Geyong Min , Xin Yao

Multimodal learning has seen remarkable progress, particularly with the emergence of large-scale pre-training across various modalities. However, most current approaches are built on the assumption of a deterministic, one-to-one alignment…

Machine Learning · Computer Science 2025-05-27 Sanghyuk Chun

Taxonomic classification in biodiversity research involves organizing biological specimens into structured hierarchies based on evidence, which can come from multiple modalities such as images and genetic information. We investigate whether…

Although differential evolution (DE) algorithms perform well on a large variety of complicated optimization problems, only a few theoretical studies are focused on the working principle of DE algorithms. To make the first attempt to reveal…

Neural and Evolutionary Computing · Computer Science 2022-08-16 Cong Wang , Jun He , Yu Chen , Xiufen Zou

In evolutionary multiobjective optimization, effectiveness refers to how an evolutionary algorithm performs in terms of converging its solutions into the Pareto front and also diversifying them over the front. This is not an easy job,…

Neural and Evolutionary Computing · Computer Science 2022-10-26 Yani Xue , Miqing Li , Xiaohui Liu