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A \emph{metric tree embedding} of expected \emph{stretch~$\alpha \geq 1$} maps a weighted $n$-node graph $G = (V, E, \omega)$ to a weighted tree $T = (V_T, E_T, \omega_T)$ with $V \subseteq V_T$ such that, for all $v,w \in V$,…
Min-Cut queries are fundamental: Preprocess an undirected edge-weighted graph, to quickly report a minimum-weight cut that separates a query pair of nodes $s,t$. The best data structure known for this problem simply builds a cut-equivalent…
We study the problem of finding a temporal hybridization network for a set of phylogenetic trees that minimizes the number of reticulations. First, we introduce an FPT algorithm for this problem on an arbitrary set of $m$ binary trees with…
The problem of approximate string matching is important in many different areas such as computational biology, text processing and pattern recognition. A great effort has been made to design efficient algorithms addressing several variants…
We prove that given a discrete space with $n$ points which is either embedded in a system of $k$ trees, or the Cartesian product of $k$ trees, we can compute all eccentricities in ${\cal O}(2^{{\cal O}(k\log{k})}(N+n)^{1+o(1)})$ time, where…
We give an algorithm that, given an $n$-vertex graph $G$ and an integer $k$, in time $2^{O(k)} n$ either outputs a tree decomposition of $G$ of width at most $2k + 1$ or determines that the treewidth of $G$ is larger than $k$. This is the…
Let $G = (V, E)$ be an undirected connected simple graph on $n$ vertices. A cut-equivalent tree of $G$ is an edge-weighted tree on the same vertex set $V$, such that for any pair of vertices $s, t\in V$, the minimum $(s, t)$-cut in the tree…
Given an undirected, weighted graph, the minimum spanning tree (MST) is a tree that connects all of the vertices of the graph with minimum sum of edge weights. In real world applications, network designers often seek to quickly find a…
An algorithm is proposed for constructing directed spanning forests of the minimum weight, in which the maximum possible degree of affinity between the minimum forests is preserved when the number of trees changes. The correctness of the…
We study the problem of computing the triplet distance between two rooted unordered trees with $n$ labeled leafs. Introduced by Dobson 1975, the triplet distance is the number of leaf triples that induce different topologies in the two…
In the pairwise weighted spanner problem, the input consists of an $n$-vertex-directed graph, where each edge is assigned a cost and a length. Given $k$ vertex pairs and a distance constraint for each pair, the goal is to find a…
We study computing {\em all-pairs shortest paths} (APSP) on distributed networks (the CONGEST model). The goal is for every node in the (weighted) network to know the distance from every other node using communication. The problem admits…
This paper give a simple linear-time algorithm that, given a weighted digraph, finds a spanning tree that simultaneously approximates a shortest-path tree and a minimum spanning tree. The algorithm provides a continuous trade-off: given the…
This paper presents a randomized Las Vegas distributed algorithm that constructs a minimum spanning tree (MST) in weighted networks with optimal (up to polylogarithmic factors) time and message complexity. This algorithm runs in…
Fischer has shown how to compute a minimum weight spanning tree of degree at most $b \Delta^* + \lceil \log\_b n\rceil$ in time $O(n^{4 + 1/\ln b})$ for any constant $b > 1$, where $\Delta^*$ is the value of an optimal solution and $n$ is…
We study the problem of computing approximate minimum edge cuts by distributed algorithms. We use a standard synchronous message passing model where in each round, $O(\log n)$ bits can be transmitted over each edge (a.k.a. the CONGEST…
The tree inclusion problem is, given two node-labeled trees $P$ and $T$ (the ``pattern tree'' and the ``target tree''), to locate every minimal subtree in $T$ (if any) that can be obtained by applying a sequence of node insertion operations…
Real-world data often comes in compressed form. Analyzing compressed data directly (without decompressing it) can save space and time by orders of magnitude. In this work, we focus on fundamental sequence comparison problems and try to…
k-means is a widely used clustering algorithm, but for $k$ clusters and a dataset size of $N$, each iteration of Lloyd's algorithm costs $O(kN)$ time. Although there are existing techniques to accelerate single Lloyd iterations, none of…
We study budget constrained network upgradeable problems. We are given an undirected edge weighted graph $G=(V,E)$ where the weight an edge $e \in E$ can be upgraded for a cost $c(e)$. Given a budget $B$ for improvement, the goal is to find…