Related papers: The median of the distance between two leaves in a…

The geometric median, a notion of center for multivariate distributions, has gained recent attention in robust statistics and machine learning. Although conceptually distinct from the mean (i.e., expectation), we demonstrate that both are…

Phylogenetic networks extend phylogenetic trees to model non-vertical inheritance, by which a lineage inherits material from multiple parents. The computational complexity of estimating phylogenetic networks from genome-wide data with…

Rotation distance between rooted binary trees measures the number of simple operations it takes to transform one tree into another. There are no known polynomial-time algorithms for computing rotation distance. We give an efficient,…

Let $p',q'\in R^n$. Write $p'\sim q'$ if $p'-q'$ is a multiple of $(1,\ldots,1)$. Two different points $p$ and $q$ in $R^n/\sim$ uniquely determine a tropical line $L(p,q)$, passing through them, and stable under small perturbations. This…

Phylogenetic networks which are, as opposed to trees, suitable to describe processes like hybridization and horizontal gene transfer, play a substantial role in evolutionary research. However, while non-treelike events need to be taken into…

We define, analyze, and give efficient algorithms for two kinds of distance measures for rooted and unrooted phylogenies. For rooted trees, our measures are based on the topologies the input trees induce on triplets; that is, on…

Agreement forests continue to play a central role in the comparison of phylogenetic trees since their introduction more than 25 years ago. More specifically, they are used to characterise several distances that are based on tree…

It was recently observed by de Vienne et al. that a simple square root transformation of distances between taxa on a phylogenetic tree allowed for an embedding of the taxa into Euclidean space. While the justification for this was based on…

There exists a bijection between one stack sortable permutations --permutations which avoid the pattern 231-- and planar trees. We define an edit distance between permutations which is coherent with the standard edit distance between trees.…

The rooted subtree prune and regraft (rSPR) distance between two rooted binary phylogenetic trees is a well-studied measure of topological dissimilarity that is NP-hard to compute. Here we describe an improved linear kernel for the problem.…

An evolutionary tree is a rooted tree where each internal vertex has at least two children and where the leaves are labeled with distinct symbols representing species. Evolutionary trees are useful for modeling the evolutionary history of…

Let $f_n$ be a random polynomial of degree $n\ge 2$ whose coefficients are independent and identically distributed random variables. We study the separation distances between roots of $f_n$ and prove that the set of these distances,…

A fundamental problem in the study of phylogenetic networks is to determine whether or not a given phylogenetic network contains a given phylogenetic tree. We develop a quadratic-time algorithm for this problem for binary nearly-stable…

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…

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 prove that every tree of maximum degree $\Delta$ with $\ell$ leaves contains paths between leaves of at least $\log_{\Delta-1}((\Delta-2)\ell)$ distinct lengths. This settles in a strong form a conjecture of Narins, Pokrovskiy and…

We provide an $\Omega(n\log n) $ lower bound and an $O(n^2)$ upper bound for the smallest size of rooted binary trees (a.k.a. phylogenetic tree shapes), which are universal for rooted binary trees with $n$ leaves, i.e., contain all of them…

Leaves of vascular plants are arranged regularly around stems, a phenomenon known as phyllotaxis. A constant angle between two successive leaves is called divergence angle. On the one side, the divergence angle $\alpha_0$ of an initial…

Consider the complete graph on $n$ vertices, with edge weights drawn independently from the exponential distribution with unit mean. Janson showed that the typical distance between two vertices scales as $\log{n}/n$, whereas the diameter…

A phylogenetic tree is a way to organize a finite set of species, individuals or other sources of related data. The species for which we have existing DNA data make up the set of leaves of the tree. The balanced minimal evolution method of…