Related papers: Limits of Mallows trees
Phylogenetic networks are a generalization of phylogenetic trees that allow for representation of reticulate evolution. Recently, a space of unrooted phylogenetic networks was introduced, where such a network is a connected graph in which…
We observe $n$ sequences at each of $m$ sites, and assume that they have evolved from an ancestral sequence that forms the root of a binary tree of known topology and branch lengths, but the sequence states at internal nodes are unknown.…
Construction of phylogenetic trees has traditionally focused on binary trees where all species appear on leaves, a problem for which numerous efficient solutions have been developed. Certain application domains though, such as viral…
The Subtree Isomorphism problem asks whether a given tree is contained in another given tree. The problem is of fundamental importance and has been studied since the 1960s. For some variants, e.g., ordered trees, near-linear time algorithms…
In this paper we study binary trees with choosable edge lengths, in particular rooted binary trees with the property that the two edges leading from every non-leaf to its two children are assigned integral lengths $l_1$ and $l_2$ with…
We consider so-called simple families of labelled trees, which contain, e.g., ordered, unordered, binary and cyclic labelled trees as special instances, and study the global and local behaviour of the number of inversions. In particular we…
In this expository paper, we present a construction of tree modules and combine it with (infinite dimensional) tilting theory and relative Mittag-Leffler conditions in order to explore limits of the approximation theory of modules. We also…
Let $T$ be an $n$-node tree of maximum degree 4, and let $P$ be a set of $n$ points in the plane with no two points on the same horizontal or vertical line. It is an open question whether $T$ always has a planar drawing on $P$ such that…
The occurrence and the distribution of patterns of trees associated to natural numbers are investigated. Bounds from above and below are proven for certain natural quantities.
Random forests are decision tree ensembles that can be used to solve a variety of machine learning problems. However, as the number of trees and their individual size can be large, their decision making process is often incomprehensible. In…
Tree sets are abstract structures that can be used to model various tree-shaped objects in combinatorics. Finite tree sets can be represented by finite graph-theoretical trees. We extend this representation theory to infinite tree sets.…
We investigate flows on graphs whose links have random capacities. For binary trees we derive the probability distribution for the maximal flow from the root to a leaf, and show that for infinite trees it vanishes beyond a certain threshold…
Search trees are fundamental data structures in computer science. We study functionals on random search trees that satisfy recurrence relations of a simple additive form. Many important functionals including the space requirement, internal…
We prove a lower bound on the number of spanning two-forests in a graph, in terms of the number of vertices, edges, and spanning trees. This implies an upper bound on the average cut size of a random two-forest. The main tool is an identity…
Null models of binary phylogenetic trees are useful for testing hypotheses on real world phylogenies. In this paper we consider phylogenies as binary trees without edge lengths together with a sampling measure and encode them as algebraic…
We present new and improved fixed-parameter algorithms for computing maximum agreement forests (MAFs) of pairs of rooted binary phylogenetic trees. The size of such a forest for two trees corresponds to their subtree prune-and-regraft…
Suppose we have n keys, n access probabilities for the keys, and n+1 access probabilities for the gaps between the keys. Let h_min(n) be the minimal height of a binary search tree for n keys. We consider the problem to construct an optimal…
We study the behavior of phylogenetic tree shapes in the tropical geometric interpretation of tree space. Tree shapes are formally referred to as tree topologies; a tree topology can also be thought of as a tree combinatorial type, which is…
We consider fixed-point equations for probability measures charging measured compact metric spaces that naturally yield continuum random trees. On the one hand, we study the existence/uniqueness of the fixed-points and the convergence of…
We prove polynomial upper and lower bounds on the expected size of the maximum agreement subtree of two random binary phylogenetic trees under both the uniform distribution and Yule-Harding distribution. This positively answers a question…