Related papers: Distance labeling schemes for trees

In order to conduct a statistical analysis on a given set of phylogenetic gene trees, we often use a distance measure between two trees. In a statistical distance-based method to analyze discordance between gene trees, it is a key to decide…

It is an open question whether there exists a polynomial-time algorithm for computing the rotation distances between pairs of extended ordered binary trees. The problem of computing the rotation distance between an arbitrary pair of trees,…

Let $s(n)$ be the minimum number of edges in a graph that contains every $n$-vertex tree as a subgraph. Chung and Graham [J. London Math. Soc. 1983] claim to prove that $s(n)\leqslant O(n\log n)$. We point out a mistake in their proof. The…

Local certification is a distributed mechanism enabling the nodes of a network to check the correctness of the current configuration, thanks to small pieces of information called certificates. For many classic global properties, like…

Given a finite or infinite graph $G$ and positive integers $\ell, h_1, h_2, h_3$, an $L(h_1, h_2, h_3)$-labelling of $G$ with span $\ell$ is a mapping $f: V(G) \rightarrow \{0, 1, 2, \ldots, \ell\}$ such that, for $i = 1, 2, 3$ and any $u,…

We introduce a cluster evaluation technique called Tree Index. Our Tree Index algorithm aims at describing the structural information of the clustering rather than the quantitative format of cluster-quality indexes (where the representation…

Given a rooted tree and a ranking of its leaves, what is the minimum number of inversions of the leaves that can be attained by ordering the tree? This variation of the problem of counting inversions in arrays originated in mathematical…

We study two problems that seek a subtree $T$ of a graph $G=(V,E)$ such that $T$ satisfies a certain property and has minimal maximum degree. - In the Min-Degree Group Steiner Tree problem we are given a collection ${\cal S}$ of groups…

In this paper we propose a graph-based data clustering algorithm which is based on exact clustering of a minimum spanning tree in terms of a minimum isoperimetry criteria. We show that our basic clustering algorithm runs in $O(n \log n)$…

Tree structures appear in many fields of the life sciences, including phylogenetics, developmental biology and nucleic acid structures. Trees can be used to represent RNA secondary structures, which directly relate to the function of…

Distance based algorithms are a common technique in the construction of phylogenetic trees from taxonomic sequence data. The first step in the implementation of these algorithms is the calculation of a pairwise distance matrix to give a…

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…

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…

Tanglegrams are special graphs that consist of a pair of rooted binary trees with the same number of leaves, and a perfect matching between the two leaf-sets. These objects are of use in phylogenetics and are represented with straightline…

We show that for any natural number $s$, there is a constant $\gamma$ and a subgraph-closed class having, for any natural $n$, at most $\gamma^n$ graphs on $n$ vertices up to isomorphism, but no adjacency labeling scheme with labels of size…

In phylogenetics, distances are often used to measure the incongruence between a pair of phylogenetic trees that are reconstructed by different methods or using different regions of genome. Motivated by the maximum parsimony principle in…

An identifying code of a closed-twin-free graph $G$ is a dominating set $S$ of vertices of $G$ such that any two vertices in $G$ have a distinct intersection between their closed neighborhoods and $S$. It was conjectured that there exists…

Graph Neural Networks (GNNs) have emerged as a powerful tool for semi-supervised node classification tasks. However, recent studies have revealed various biases in GNNs stemming from both node features and graph topology. In this work, we…

We propose a new succinct representation of labeled trees which represents a tree T using |T|H_k(T) number of bits (plus some smaller order terms), where |T|H_k(T) denotes the k-th order (tree label) entropy, as defined by Ferragina at al.…

Given a 2-edge connected, unweighted, and undirected graph $G$ with $n$ vertices and $m$ edges, a $\sigma$-tree spanner is a spanning tree $T$ of $G$ in which the ratio between the distance in $T$ of any pair of vertices and the…