Results 1 to 10 of about 149,860 (254)
Biochemical and phylogenetic networks-II: X-trees and phylogenetic trees [PDF]
Journal of Mathematical Chemistry, 2021 The present study, which is a continuation of the previous paper, augments a recent work on the use of phylogenetic networks. We develop techniques to characterize the topology of various X-trees and binary trees of biological and phylogenetic interests. We have obtained the results for various k-level X-trees and phylogenetic networks with variants of
Krishnan Balasubramanian +2 more
exaly +4 more sources
U.PhyloMaker: An R package that can generate large phylogenetic trees for plants and animals [PDF]
Plant Diversity, 2023 The previously released packages of the PhyloMaker series (i.e. S.PhyloMaker, V.PhyloMaker, and V.PhyloMaker2) have been broadly used to generate phylogenetic trees for ecological and biogeographical studies.
Yi Jin, Hong Qian
doaj +2 more sources
Visualizing incompatibilities in phylogenetic trees using consensus outlines [PDF]
Frontiers in Bioinformatics, 2023 Phylogenetic analysis frequently leads to the creation of many phylogenetic trees, either from using multiple genes or methods, or through bootstrapping or Bayesian analysis.
Daniel H. Huson +3 more
doaj +2 more sources
A vector representation for phylogenetic trees. [PDF]
Philos Trans R Soc Lond B Biol SciGood representations for phylogenetic trees and networks are important for enhancing storage efficiency and scalability for the inference and analysis of evolutionary trees for genes, genomes and species. We propose a new representation for rooted phylogenetic trees that encodes a tree on
Chauve C, Colijn C, Zhang L.
europepmc +4 more sources
tidy tree: A New Layout for Phylogenetic Trees. [PDF]
Mol Biol Evol, 2022 AbstractMany layouts exist for visualizing phylogenetic trees, allowing to display the same information (evolutionary relationships) in different ways. For large phylogenies, the choice of the layout is a key element, because the printable area is limited, and because interactive on-screen visualizers can lead to unreadable phylogenetic relationships ...
Penel S, de Vienne DM.
europepmc +4 more sources
Geometry of the Space of Phylogenetic Trees
Advances in Applied Mathematics, 2001 zbMATH Open Web Interface contents unavailable due to conflicting licenses.
, Karen Vogtmann, Louis J Billera
exaly +3 more sources
PLoS ONE, 2015 Investigating patterns of phylogenetic structure across different life stages of tree species in forests is crucial to understanding forest community assembly, and investigating forest gap influence on the phylogenetic structure of forest regeneration is
Mingjian Yu, Hong Qian, Yi Jin
exaly +2 more sources
Imputing Phylogenetic Trees Using Tropical Polytopes over the Space of Phylogenetic Trees
Mathematics, 2023 When we apply comparative phylogenetic analyses to genome data, it poses a significant problem and challenge that some of the given species (or taxa) often have missing genes (i.e., data).
Ruriko Yoshida
doaj +1 more source
Computing RF Tree Distance over Succinct Representations
Algorithms, 2023 There are several tools available to infer phylogenetic trees, which depict the evolutionary relationships among biological entities such as viral and bacterial strains in infectious outbreaks or cancerous cells in tumor progression trees.
António Pedro Branco +2 more
doaj +1 more source
Journal of Software for Algebra and Geometry, 2021 We introduce the package PhylogeneticTrees for Macaulay2 which allows users to compute phylogenetic invariants for group-based tree models. We provide some background information on phylogenetic algebraic geometry and show how the package PhylogeneticTrees can be used to calculate a generating set for a phylogenetic ideal as well as a lower bound for ...
Baños, Hector +8 more
openaire +3 more sources