相关论文: Computing Geodesic Distances in Tree Space

The Euclidean Steiner Minimal Tree problem takes as input a set $\mathcal P$ of points in the Euclidean plane and finds the minimum length network interconnecting all the points of $\mathcal P$. In this paper, in continuation to the works…

We study shortest paths and their distances on a subset of a Euclidean space, and their approximation by their equivalents in a neighborhood graph defined on a sample from that subset. In particular, we recover and extend the results of…

We consider the problem of embedding the Steiner points of a Steiner tree with given topology into the rectilinear plane. Thereby, the length of the path between a distinguished terminal and each other terminal must not exceed given length…

An influential result by Dor, Halperin, and Zwick (FOCS 1996, SICOMP 2000) implies an algorithm that can compute approximate shortest paths for all vertex pairs in $\tilde{O}(n^{2+O\left(\frac{1}{k}\right )})$ time, ensuring that the output…

We develop combinatorial methods for computing the rotation distance between binary trees, i.e., equivalently, the flip distance between triangulations of a polygon. As an application, we prove that, for each n, there exist size n trees at…

Gromov-Hausdorff (GH) distance is a natural way to measure the distortion between two metric spaces. However, there has been only limited algorithmic development to compute or approximate this distance. We focus on computing the…

For a graph $G$, an edge-separating (resp. vertex-separating) path system of $G$ is a family of paths in $G$ such that for any pair of edges $e_1, e_2$ (resp. pair of vertices $v_1, v_2$) of $G$ there is at least one path in the family that…

We augment a tree $T$ with a shortcut $pq$ to minimize the largest distance between any two points along the resulting augmented tree $T+pq$. We study this problem in a continuous and geometric setting where $T$ is a geometric tree in the…

Geometric characteristics of metric spaces that appear in formulas of the Gromov--Hausdorff distances from these spaces to so-called simplexes, i.e., to the metric spaces, all whose non-zero distances are the same are studied. The…

In this paper we study the problem of computing the geodesic center of a simple polygon when the available workspace is limited. For an $n$-vertex simple polygon, we give a time-space trade-off algorithm that finds the geodesic center in…

An L(2,1)-labeling of a graph $G$ is an assignment $f$ from the vertex set $V(G)$ to the set of nonnegative integers such that $|f(x)-f(y)|\ge 2$ if $x$ and $y$ are adjacent and $|f(x)-f(y)|\ge 1$ if $x$ and $y$ are at distance 2, for all…

Computing the edit distance of two strings is one of the most basic problems in computer science and combinatorial optimization. Tree edit distance is a natural generalization of edit distance in which the task is to compute a measure of…

Tropical geometry with the max-plus algebra has been applied to statistical learning models over tree spaces because geometry with the tropical metric over tree spaces has some nice properties such as convexity in terms of the tropical…

All known algorithms for the Fr\'echet distance between curves proceed in two steps: first, they construct an efficient oracle for the decision version; second, they use this oracle to find the optimum from a finite set of critical values.…

In phylogenetic networks, it is desirable to estimate edge lengths in substitutions per site or calendar time. Yet, there is a lack of scalable methods that provide such estimates. Here we consider the problem of obtaining edge length…

We introduce and investigate the space of \emph{equidistant} $X$-\emph{cactuses}. These are rooted, arc weighted, phylogenetic networks with leaf set $X$, where $X$ is a finite set of species, and all leaves have the same distance from the…

For $d\ge 2$ and an odd prime power $q$, consider the vector space $\mathbb{F}_q^d$ over the finite field $\mathbb{F}_q$, where the distance between two points $(x_1,\ldots,x_d)$ and $(y_1,\ldots,y_d)$ is defined as $\sum_{i=1}^d…

An optimal transport path may be viewed as a geodesic in the space of probability measures under a suitable family of metrics. This geodesic may exhibit a tree-shaped branching structure in many applications such as trees, blood vessels,…

Due to hybridization events in evolution, studying two different genes of a set of species may yield two related but different phylogenetic trees for the set of species. In this case, we want to measure the dissimilarity of the two trees.…

In this paper, we consider a tree inference problem motivated by the critical problem in single-cell genomics of reconstructing dynamic cellular processes from sequencing data. In particular, given a population of cells sampled from such a…