Related papers: An Almost Optimal Edit Distance Oracle
A distance oracle is a compact representation of the shortest distance matrix of a graph. It can be queried to approximate shortest paths between any pair of vertices. Any distance oracle that returns paths of worst-case stretch (2k-1) must…
The tree edit distance is a natural dissimilarity measure between rooted ordered trees whose nodes are labeled over an alphabet $\Sigma$. It is defined as the minimum number of node edits (insertions, deletions, and relabelings) required to…
We study fully dynamic algorithms for maximum matching. This is a well-studied problem, known to admit several update-time/approximation trade-offs. For instance, it is known how to maintain a 1/2-approximate matching in $\log^{O(1)} n$…
We study optimization problems in a metric space $(\mathcal{X},d)$ where we can compute distances in two ways: via a ''strong'' oracle that returns exact distances $d(x,y)$, and a ''weak'' oracle that returns distances $\tilde{d}(x,y)$…
Motivated by the imminent growth of massive, highly redundant genomic databases, we study the problem of compressing a string database while simultaneously supporting fast random access, substring extraction and pattern matching to the…
We present novel randomized approximation schemes for the Edit Distance (ED) problem and the Longest Common Subsequence (LCS) problem that, for any constant $\epsilon>0$, compute a $(1+\epsilon)$-approximation for ED and a…
We present a new distance oracle in the fully dynamic setting: given a weighted undirected graph $G=(V,E)$ with $n$ vertices undergoing both edge insertions and deletions, and an arbitrary parameter $\epsilon$ where $\epsilon\in[1/\log^{c}…
Calculating the diameter of an undirected graph requires quadratic running time under the Strong Exponential Time Hypothesis and this barrier works even against any approximation better than 3/2. For planar graphs with positive edge…
For a static array A of n ordered objects, a range minimum query asks for the position of the minimum between two specified array indices. We show how to preprocess A into a scheme of size 2n+o(n) bits that allows to answer range minimum…
We revisit the classic border tree data structure [Gu, Farach, Beigel, SODA 1994] that answers the following prefix-suffix queries on a string $T$ of length $n$ over an integer alphabet $\Sigma=[0,\sigma)$: for any $i,j \in [0,n)$ return…
In this paper we study the fundamental problem of maintaining a dynamic collection of strings under the following operations: concat - concatenates two strings, split - splits a string into two at a given position, compare - finds the…
We present a compressed representation of tries based on top tree compression [ICALP 2013] that works on a standard, comparison-based, pointer machine model of computation and supports efficient prefix search queries. Namely, we show how to…
Given two vertex sets $S$ and $T$ in a graph, the $ST$-diameter is the maximum $s$-$t$-distance between vertices $s \in S$ and $t \in T$. We study the problem of estimating the $ST$-diameter of graphs that are subject to a small number of…
In the problem of semialgebraic range searching, we are to preprocess a set of points in $\mathbb{R}^D$ such that the subset of points inside a semialgebraic region described by $O(1)$ polynomial inequalities of degree $\Delta$ can be found…
We study approximation algorithms for the following three string measures that are widely used in practice: edit distance (ED), longest common subsequence (LCS), and longest increasing sequence (LIS). All three problems can be solved…
We consider the problem of finding, given two documents of total length $n$, a longest string occurring as a substring of both documents. This problem, known as the Longest Common Substring (LCS) problem, has a classic $O(n)$-time solution…
In this paper, we study estimators for geometric optimization problems in the sublinear geometric model. In this model, we have oracle access to a point set with size $n$ in a discrete space $[\Delta]^d$, where queries can be made to an…
In the $(k,m)$-mappability problem, for a given sequence $T$ of length $n$, the goal is to compute a table whose $i$th entry is the number of indices $j \ne i$ such that the length-$m$ substrings of $T$ starting at positions $i$ and $j$…
The problem called "String reconstruction from substrings" is a mathematical model of sequencing by hybridization that plays an important role in DNA sequencing. In this problem, we are given a blackbox oracle holding an unknown string…
Given $n$ intervals on a line $\ell$, we consider the problem of moving these intervals on $\ell$ such that no two intervals overlap and the maximum moving distance of the intervals is minimized. The difficulty for solving the problem lies…