Related papers: Fig Tree-Wasp Symbiotic Coevolutionary Optimizatio…
We prove that Fisher-Rao natural gradient descent (FR-NGD) optimally approximates the continuous time replicator equation (an essential model of evolutionary dynamics), and term this correspondence "conjugate natural selection". This…
'Tree-based' phylogenetic networks proposed by Francis and Steel have attracted much attention of theoretical biologists in the last few years. At the heart of the definitions of tree-based phylogenetic networks is the notion of 'support…
In this paper, a new meta-heuristic algorithm, called beetle swarm optimization algorithm, is proposed by enhancing the performance of swarm optimization through beetle foraging principles. The performance of 23 benchmark functions is…
This paper will consider the coevolution of species which are symbiotic in their interaction. In particular, we shall analyse the interaction of squirrels and oak trees, and develop a mathematical framework for determining the…
Mutualistic networks have been shown to involve complex patterns of interactions among animal and plant species. The architecture of these webs seems to pervade some of their robust and fragile behaviour. Recent work indicates that there is…
Determining the interaction partners among protein/domain families poses hard computational problems, in particular in the presence of paralogous proteins. Available approaches aim to identify interaction partners among protein/domain…
As researchers collect increasingly large molecular data sets to reconstruct the Tree of Life, the heterogeneity of signals in the genomes of diverse organisms poses challenges for traditional phylogenetic analysis. A class of phylogenetic…
The growing complexity of real-world problems has motivated computer scientists to search for efficient problem-solving methods. Metaheuristics based on evolutionary computation and swarm intelligence are outstanding examples of…
Phylogenetic trees are leaf-labelled trees used to model the evolution of species. In practice it is not uncommon to obtain two topologically distinct trees for the same set of species, and this motivates the use of distance measures to…
Ecologists have long suspected that species are more likely to interact if their traits match in a particular way. For example, a pollination interaction may be more likely if the proportions of a bee's tongue fit a plant's flower shape.…
We introduce a novel interpretable tree based algorithm for prediction in a regression setting. Our motivation is to estimate the unknown regression function from a functional decomposition perspective in which the functional components…
Global optimisation problems in high-dimensional and infinite dimensional spaces arise in various real-world applications such as engineering, economics, geophysics, biology, machine learning, optimal control, etc. Among stochastic…
Classification accuracy provided by a machine learning model depends a lot on the feature set used in the learning process. Feature Selection (FS) is an important and challenging pre-processing technique which helps to identify only the…
Phylogenetic trees describe the relationships between species in the evolutionary process, and provide information about the rates of diversification. To understand the mechanisms behind macroevolution, we consider a class of multitype…
Evolutionary strategies have recently been shown to achieve competing levels of performance for complex optimization problems in reinforcement learning. In such problems, one often needs to optimize an objective function subject to a set of…
Evolutionary optimisation algorithm is employed to design networks of phase-repulsive oscillators that achieve an anti-phase synchronised state. By introducing the link frustration, the evolutionary process is implemented by rewiring the…
Evolutionary algorithms have been frequently applied to constrained continuous optimisation problems. We carry out feature based comparisons of different types of evolutionary algorithms such as evolution strategies, differential evolution…
Predicting protein-protein interactions from sequences is an important goal of computational biology. Various sources of information can be used to this end. Starting from the sequences of two interacting protein families, one can use…
Finding the most parsimonious tree inside a phylogenetic network with respect to a given character is an NP-hard combinatorial optimization problem that for many network topologies is essentially inapproximable. In contrast, if the network…
Mixed-effects models are among the most commonly used statistical methods for the exploration of multispecies data. In recent years, also Joint Species Distribution Models and Generalized Linear Latent Variale Models have gained in…