Related papers: Species Trees Forcing Parsimony to Fail
In this paper, we address the question of comparison between populations of trees. We study an statistical test based on the distance between empirical mean trees, as an analog of the two sample z statistic for comparing two means. Despite…
The multispecies coalescent process models the genealogical relationships of genes sampled from several species, enabling useful predictions about phenomena such as the discordance between the gene tree and the species phylogeny due to…
Given a finite typed rooted tree $T$ with $n$ vertices, the {\em empirical subtree measure} is the uniform measure on the $n$ typed subtrees of $T$ formed by taking all descendants of a single vertex. We prove a large deviation principle in…
We say that a graph $F$ can be embedded into a graph $G$ if $G$ contains an isomorphic copy of $F$ as a subgraph. Guo and Volkmann \cite{GV} conjectured that if $G$ is a connected graph with at least $n$ vertices and minimum degree at least…
It is well-known that inference in graphical models is hard in the worst case, but tractable for models with bounded treewidth. We ask whether treewidth is the only structural criterion of the underlying graph that enables tractable…
Phylogenetic reconstruction aims at finding plausible hypotheses of the evolutionary history of genes or species based on genomic sequence information. The distinction of orthologous genes (genes that having a common ancestry and diverged…
Bayesian inference is now a leading technique for reconstructing phylogenetic trees from aligned sequence data. In this short note, we formally show that the maximum posterior tree topology provides a statistically consistent estimate of a…
Let $n\geq\nu$, let $T$ be an $n$-vertex tree with bipartition class sizes $t_1\geq t_2$, and let $S$ be a $\nu$-vertex tree with bipartition class sizes $\tau_1\geq\tau_2$. Using four natural constructions, we show that the Ramsey number…
Graph isomorphism, subgraph isomorphism, and maximum common subgraphs are classical well-investigated objects. Their (parameterized) complexity and efficiently tractable cases have been studied. In the present paper, for a given set of…
A subtree of a tree is any induced subgraph that is again a tree (i.e., connected). The mean subtree order of a tree is the average number of vertices of its subtrees. This invariant was first analyzed in the 1980s by Jamison. An intriguing…
We characterize the extremal trees that maximize the number of almost-perfect matchings, which are matchings covering all but one or two vertices, and those that maximize the number of strong almost-perfect matchings, which are matchings…
We study random trees which are invariant in law under the operation of contracting each edge independently with probability $p\in(0,1)$. We show that all such trees can be constructed through Poissonian sampling from a certain class of…
The arboricity $\Gamma(G)$ of an undirected graph $G =(V,E)$ is the minimal number $k$ such that $E$ can be partitioned into $k$ forests on $V$. Nash-Williams' formula states that $k = \lceil \gamma(G) \rceil$, where $\gamma(G)$ is the…
Let $G = (V,E)$ denote a simple graph with the vertex set $V$ and the edge set $E$. The profile of a vertex set $V'\subseteq V$ denotes the multiset of pairwise distances between the vertices of $V'$. Two disjoint subsets of $V$ are…
We prove the Strong Nine Dragon Tree Conjecture is true if we replace the edge bound with $d + \big\lceil k \big\lfloor\frac{d-1}{k+1}\big\rfloor \big(\frac{d}{k+1} - \frac{1}{2} \big\lceil\frac{d}{k+1}\big\rceil \big)\big\rceil \leq d +…
We consider special cases of the two tree degree sequences problem. We show that if two tree degree sequences do not have common leaves then they always have edge-disjoint caterpillar realizations. By using a probabilistic method, we prove…
An evolutionary tree is a cascade of bifurcations starting from a single common root, generating a growing set of daughter species as time goes by. Species here is a general denomination for biological species, spoken languages or any other…
The decision tree is one of the most popular and classical machine learning models from the 1980s. However, in many practical applications, decision trees tend to generate decision paths with excessive depth. Long decision paths often cause…
Here we show that deciding whether two rooted binary phylogenetic trees on the same set of taxa permit a cherry-picking sequence, a special type of elimination order on the taxa, is NP-complete. This improves on an earlier result which…
Genomes and genes diversify during evolution; however, it is unclear to what extent genes still retain the relationship among species. Model species for molecular phylogenetic studies include yeasts and viruses whose genomes were sequenced…