Related papers: Combinatorial properties of triplet covers for bin…
Given two binary trees on $N$ labeled leaves, the quartet distance between the trees is the number of disagreeing quartets. By permuting the leaves at random, the expected quartets distance between the two trees is…
We prove that for any finite tree $T$ with $n$ vertices and maximal degree $3$, there is a topological embedding of $T$ into the integer grid $Z^2$ which maps vertices to vertices and whose image meets at most $\frac{7}{3}n$ vertices. This…
There are several interrelated notions of discrete curvature on graphs. Many approaches utilize the optimal transportation metric on its probability simplex or the distance matrix of the graph. In this survey article, we compute formulas…
Flips in triangulations of convex polygons arise in many different settings. They are isomorphic to rotations in binary trees, define edges in the 1-skeleton of the Associahedron and cover relations in the Tamari Lattice. The complexity of…
Construction of phylogenetic trees and networks for extant species from their characters represents one of the key problems in phylogenomics. While solution to this problem is not always uniquely defined and there exist multiple methods for…
A classical result, fundamental to evolutionary biology, states that an edge-weighted tree $T$ with leaf set $X$, positive edge weights, and no vertices of degree 2 can be uniquely reconstructed from the set of leaf-to-leaf distances…
Edit distances between merge trees of scalar fields have many applications in scientific visualization, such as ensemble analysis, feature tracking or symmetry detection. In this paper, we propose branch mappings, a novel approach to the…
Rooted triples, rooted binary phylogenetic trees on three leaves, are sufficient to encode rooted binary phylogenetic trees. That is, if $\mathcal T$ and $\mathcal T'$ are rooted binary phylogenetic $X$-trees that infers the same set of…
Two triples of triangles having pairwise disjoint outlines in 3-space are called combinatorially isotopic if one triple can be obtained from the other by a continuous motion during which the outlines of the triangles remain pairwise…
A metric phylogenetic tree relating a collection of taxa induces weighted rooted triples and weighted quartets for all subsets of three and four taxa, respectively. New intertaxon distances are defined that can be calculated from these…
A split-by-edges tree of a graph G on n vertices is a binary tree T where the root = V(G), every leaf is an independent set in G, and for every other node N in T with children L and R there is a pair of vertices {u, v} in N such that L = N…
The problem of reconstructing evolutionary trees or phylogenies is of great interest in computational biology. A popular model for this problem assumes that we are given the set of leaves (current species) of an unknown binary tree and the…
Distances on merge trees facilitate visual comparison of collections of scalar fields. Two desirable properties for these distances to exhibit are 1) the ability to discern between scalar fields which other, less complex topological…
A closed-form formula is derived for the number of occurrences of matches of a multiset of patterns among all ordered (plane-planted) trees with a given number of edges. A pattern looks like a tree, with internal nodes and leaves, but also…
We study the structures of arbitrary split Leibniz triple systems. By developing techniques of connections of roots for this kind of triple systems, under certain conditions, in the case of $T$ being of maximal length, the simplicity of the…
This is a companion paper to the paper "Hyperstability in the Erdos-Sos Conjecture". In that paper the following rough structure theorem was proved for graphs G containing no copy of a bounded degree tree T: from any such G, one can delete…
To a given nonsingular triangular matrix A with entries from a ring, we associate a weighted bipartite graph G(A) and give a combinatorial description of the inverse of A by employing paths in G(A). Under a certain condition, nonsingular…
This article focuses on a combinatorial structure specific to triangulated plane graphs with quadrangular outer face and no separating triangle, which are called irreducible triangulations. The structure has been introduced by Xin He under…
We study minimal vertex covers and maximal matchings on trees. We pay special attention to the corresponding backbones i.e. these vertices that are occupied and those that are empty in every minimal vertex cover (resp. these egdes that are…
J. Herzog, T. Hibi, N. V. Trung and X. Zheng characterize the vertex cover algebras which are standard graded. In this paper we give a simple combinatorial criterion for the standard graded property of vertex cover algebras in the case of…