Related papers: The disentangling number for phylogenetic mixtures
Tree Containment is a fundamental problem in phylogenetics useful for verifying a proposed phylogenetic network, representing the evolutionary history of certain species. Tree Containment asks whether the given phylogenetic tree (for…
This manuscript introduces Diophantine labeling, a new way of labeling of the vertices for finite simple undirected graphs with some divisibility condition on the edges. Maximal graphs admitting Diophantine labeling are investigated and…
Planning for the protection of species often involves difficult choices about which species to prioritize, given constrained resources. One way of prioritizing species is to consider their "evolutionary distinctiveness", i.e. their relative…
The burning number is a recently introduced graph parameter indicating the spreading speed of content in a graph through its edges. While the conjectured upper bound on the necessary numbers of time steps until all vertices are reached is…
We prove that a random labeled (unlabeled) tree is balanced. We also prove that random labeled and unlabeled trees are strongly $k$-balanced for any $k\geq 3$.
Phylogenomics heavily relies on well-curated sequence data sets that consist, for each gene, exclusively of 1:1-orthologous. Paralogs are treated as a dangerous nuisance that has to be detected and removed. We show here that this severe…
Phylogenetic networks are directed acyclic graphs that depict the genomic evolution of related taxa. Reticulation nodes in such networks (nodes with more than one parent) represent reticulate evolutionary events, such as recombination,…
The Rooted Maximum Leaf Outbranching problem consists in finding a spanning directed tree rooted at some prescribed vertex of a digraph with the maximum number of leaves. Its parameterized version asks if there exists such a tree with at…
We give a necessary and sufficient condition for the maximum multiplicity of a root of the matching polynomial of a tree to be equal to the minimum number of vertex disjoint paths needed to cover it.
We define a bivariate polynomial for unlabeled rooted trees and show that the polynomial of an unlabeled rooted tree $T$ is the generating function of a class of subtrees of $T$. We prove that the polynomial is a complete isomorphism…
We propose a statistical method to test whether two phylogenetic trees with given alignments are significantly incongruent. Our method compares the two distributions of phylogenetic trees given by the input alignments, instead of comparing…
A phylogenetic tree is an edge-weighted binary tree, with leaves labelled by a collection of species, that represents the evolutionary relationships between those species. For such a tree, a phylogenetic diversity index is a function that…
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.…
Phylogenetic trees and networks are graphs used to model evolutionary relationships, with trees representing strictly branching histories and networks allowing for events in which lineages merge, called reticulation events. While the…
We give a long exact sequence for the homology of a graded atomic lattice equipped with a sheaf of modules, in terms of the deleted and restricted lattices. This is then used to compute the homology of the arrangement lattice of a…
Consider a polynomial $F$ in $m$ variables and a finite point ensemble $S=S_1 \times ... \times S_m$. When given the leading monomial of $F$ with respect to a lexicographic ordering we derive improved information on the possible number of…
We address the problem of finding nice labellings for event structures of degree 3. We develop a minimum theory by which we prove that the labelling number of an event structure of degree 3 is bounded by a linear function of the height. The…
Three-way dissimilarities are a generalization of (two-way) dissimilarities which can be used to indicate the lack of homogeneity or resemblance between any three objects. Such maps have applications in cluster analysis, and have been used…
Untangling is a process in which some vertices of a planar graph are moved to obtain a straight-line plane drawing. The aim is to move as few vertices as possible. We present an algorithm that untangles the cycle graph C_n while keeping at…
Galled trees are studied as a recombination model in population genetics. This class of phylogenetic networks is generalized into tree-child, galled and reticulation-visible network classes by relaxing a structural condition imposed on…