Related papers: Maximally probable tree topologies with $r$-furcat…
We consider two varieties of labeled rooted trees, and the probability that a vertex chosen from all vertices of all trees of a given size uniformly at random has a given rank. We prove that this probability converges to a limit as the tree…
Analysis of probability distributions conditional on species trees has demonstrated the existence of anomalous ranked gene trees (ARGTs), ranked gene trees that are more probable than the ranked gene tree that accords with the ranked…
Generating trees are a useful technique in the enumeration of various combinatorial objects, particularly restricted permutations. Quite often the generating tree for the set of permutations avoiding a set of patterns requires infinitely…
Consider an infinite, rooted, connected graph where each vertex is labelled with an independent and identically distributed Uniform(0,1) random variable, plus a parameter $\theta$ times its distance from the root $\rho$. That is, we label…
This paper studies constructive heuristics for the minimum labelling spanning tree (MLST) problem. The purpose is to find a spanning tree that uses edges that are as similar as possible. Given an undirected labeled connected graph (i.e.,…
A labelled, undirected graph is a graph whose edges have assigned labels, from a specific set. Given a labelled, undirected graph, the well-known minimum labelling spanning tree problem is aimed at finding the spanning tree of the graph…
Merge trees are fundamental structures in topological data analysis. Interleaving distance is a widely accepted metric for comparing merge trees, with applications in visualization and scientific computing. While a greedy algorithm exists…
In this paper, we study a regular rooted coloured tree with random labels assigned to its edges, where the distribution of the label assigned to an edge depends on the colours of its endpoints. We obtain some new results relevant to this…
An $r$-matching in a graph $G$ is a collection of edges in $G$ such that the distance between any two edges is at least $r$. A $2$-matching is also called an induced matching. In this paper, we estimate the maximum number of $r$-matchings…
Coalescent models of bifurcating genealogies are used to infer evolutionary parameters from molecular data. However, there are many situations where bifurcating genealogies do not accurately reflect the true underlying ancestral history of…
Accessibility percolation is a new type of percolation problem inspired by evolutionary biology. To each vertex of a graph a random number is assigned and a path through the graph is called accessible if all numbers along the path are in…
We analyse a maximum-likelihood approach for combining phylogenetic trees into a larger `supertree'. This is based on a simple exponential model of phylogenetic error, which ensures that ML supertrees have a simple combinatorial description…
Motivated by the study of random temporal networks, we introduce a class of random trees that we coin \emph{uniform temporal trees}. A uniform temporal tree is obtained by assigning independent uniform $[0,1]$ labels to the edges of a…
Semi-labeled trees are phylogenies whose internal nodes may be labeled by higher-order taxa. Thus, a leaf labeled Mus musculus could nest within a subtree whose root node is labeled Rodentia, which itself could nest within a subtree whose…
We consider maximum rooted tree extension counts in random graphs, i.e., we consider M_n = \max_v X_v where X_v counts the number of copies of a given tree in G_{n,p} rooted at vertex v. We determine the asymptotics of M_n when the random…
In 1989 Erd\H{o}s and Sz\'ekely showed that there is a bijection between (i) the set of rooted trees with $n+1$ vertices whose leaves are bijectively labeled with the elements of $[\ell]=\{1,2,\dots,\ell\}$ for some $\ell \leq n$, and (ii)…
We study maximal clades in random phylogenetic trees with the Yule-Harding model or, equivalently, in binary search trees. We use probabilistic methods to reprove and extend earlier results on moment asymptotics and asymptotic normality. In…
The aim of this chapter is to provide an adequate graph theoretic framework for the description of periodic bifurcations which have recently been discovered in descendant trees of finite p-groups. The graph theoretic concepts of rooted…
Packing graphs is a combinatorial problem where several given graphs are being mapped into a common host graph such that every edge is used at most once. In the planar tree packing problem we are given two trees T1 and T2 on n vertices and…
Deciding whether a collection of unrooted trees is compatible is a fundamental problem in phylogenetics. Two different graph-theoretic characterizations of tree compatibility have recently been proposed. In one of these, tree compatibility…