Related papers: Root location in random trees: A polarity property…
An infection spreads in a binary tree of height n as follows: initially, each leaf is either infected by one of k states or it is not infected at all. The infection state of each leaf is independently distributed according to a probability…
The $\text{NJ}_{st}$ method was proposed by Liu and Yu to infer a species tree topology from unrooted topological gene trees. While its statistical consistency under the multispecies coalescent model was established only for a 4-taxon tree,…
We consider a neutral haploid population whose generations are not overlapping and whose size is large and constantly of $N$ individuals. Any generation is replaced by a new one and any individual has a single parent. We do not choose the…
The most general single species autonomous reaction-diffusion model on a Cayley tree with nearest-neighbor interactions is introduced. The stationary solutions of such models, as well as their dynamics, are discussed. To study dynamics of…
We consider the problem of PAC-learning decision trees, i.e., learning a decision tree over the n-dimensional hypercube from independent random labeled examples. Despite significant effort, no polynomial-time algorithm is known for learning…
The need for structures capable of accommodating complex evolutionary signals such as those found in, for example, wheat has fueled research into phylogenetic networks. Such structures generalize the standard phylogenetic tree model by also…
Semidirected networks have received interest in evolutionary biology as the appropriate generalization of unrooted trees to networks, in which some but not all edges are directed. Yet these networks lack proper theoretical study. We define…
A large class of phylogenetic networks can be obtained from trees by the addition of horizontal edges between the tree edges. These networks are called tree based networks. Reticulation-visible networks and child-sibling networks are all…
Rooted phylogenetic networks are often constructed by combining trees, clusters, triplets or characters into a single network that in some well-defined sense simultaneously represents them all. We review these four models and investigate…
In this article, we develop a new class of multivariate distributions adapted for count data, called Tree P\'olya Splitting. This class results from the combination of a univariate distribution and singular multivariate distributions along…
Hidden tree Markov models allow learning distributions for tree structured data while being interpretable as nondeterministic automata. We provide a concise summary of the main approaches in literature, focusing in particular on the…
Unrooted phylogenetic networks are graphs used to represent evolutionary relationships. Accurately reconstructing such networks is of great relevance for evolutionary biology. It has recently been conjectured that all phylogenetic networks…
A power law degree distribution is established for a graph evolution model based on the graph class of k-trees. This k-tree-based graph process can be viewed as an idealized model that captures some characteristics of the preferential…
We study the Potts model on locally tree-like random graphs of arbitrary degree distribution. Using a population dynamics algorithm we numerically solve the problem exactly. We confirm our results with simulations. Comparisons with a…
We characterize the compatibility of a collection of unrooted phylogenetic trees as a question of determining whether a graph derived from these trees --- the display graph --- has a specific kind of triangulation, which we call legal. Our…
Motivated by online recommendation systems, we study a family of random forests. The vertices of the forest are labeled by integers. Each non-positive integer $i\le 0$ is the root of a tree. Vertices labeled by positive integers $n \ge 1$…
Let $T\_n$ denote the set of unrooted labeled trees of size $n$ and let $T\_n$ be a particular (finite, unlabeled) tree. Assuming that every tree of $T\_n$ is equally likely, it is shown that the limiting distribution as $n$ goes to…
We compare three basic kinds of discrete mathematical models used to portray phylogenetic relationships among species and higher taxa: phylogenetic trees, Hennig trees and Nelson cladograms. All three models are trees, as that term is…
This extended abstract is dedicated to the analysis of the height of non-plane unlabelled rooted binary trees. The height of such a tree chosen uniformly among those of size $n$ is proved to have a limiting theta distribution, both in a…
Let $\mathcal{T}_n$ be the set of trees with $n$ vertices. Suppose that each tree in $\mathcal{T}_n$ is equally likely. We show that the number of different rooted trees of a tree equals $(\mu_r+o(1))n$ for almost every tree of…