An evolutionary algorithm based on parsimony for the multiobjective phylogenetic network inference problem

M Villalobos-Cid, M Dorn, Á Contreras… - Applied Soft …, 2023 - Elsevier
Phylogenetic networks can represent evolutionary phenomena that phylogenetic trees
cannot describe, such as parallelism, convergence, reversion, hybridisation, recombination …

A structure theorem for rooted binary phylogenetic networks and its implications for tree-based networks

M Hayamizu - SIAM Journal on Discrete Mathematics, 2021 - SIAM
Attempting to recognize a tree inside a phylogenetic network is a fundamental undertaking
in evolutionary analysis. In the last few years, therefore,“tree-based” phylogenetic networks …

How far is my network from being edge-based? Proximity measures for edge-basedness of unrooted phylogenetic networks

M Fischer, TN Hamann, K Wicke - Discrete Applied Mathematics, 2023 - Elsevier
Phylogenetic networks which are, as opposed to trees, suitable to describe processes like
hybridization and horizontal gene transfer, play a substantial role in evolutionary research …

Orienting undirected phylogenetic networks to tree-child network

S Maeda, Y Kaneko, H Muramatsu, Y Murakami… - arXiv preprint arXiv …, 2023 - arxiv.org
Phylogenetic networks are used to represent the evolutionary history of species. They are
versatile when compared to traditional phylogenetic trees, as they capture more complex …

[HTML][HTML] Rooted NNI moves and distance-1 tail moves on tree-based phylogenetic networks

PL Erdős, A Francis, TR Mezei - Discrete Applied Mathematics, 2021 - Elsevier
We show that any two tree-based rooted binary phylogenetic networks (with the same
number of reticulation nodes and identical degrees at the root) are connected by at most (4 …

Making a Network Orchard by Adding Leaves

L van Iersel, M Jones, E Julien, Y Murakami - arXiv preprint arXiv …, 2023 - arxiv.org
Phylogenetic networks are used to represent the evolutionary history of species. Recently,
the new class of orchard networks was introduced, which were later shown to be …

The space of tree-based phylogenetic networks

M Fischer, A Francis - Bulletin of Mathematical Biology, 2020 - Springer
Phylogenetic networks are generalizations of phylogenetic trees that allow the
representation of reticulation events such as horizontal gene transfer or hybridization, and …

Novel aspects of mathematical phylogenetics

K Wicke - 2020 - epub.ub.uni-greifswald.de
Mathematical phylogenetics provides the theoretical framework for the reconstruction and
analysis of phylogenetic trees and networks. The underlying theory is based on various …

[PDF][PDF] A New Method to Measure Tree-basedness of Rooted Binary Phylogenetic Networks

N BONGAERTS - pure.tue.nl
This bachelor thesis explores the possibility of a new proximity measure for tree-basedness
of rooted binary phylogenetic networks. The main research question addressed in this study …