Related papers: Improved Approximation Algorithms for Dyck Edit Di…

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…

Motivation: Predicting the secondary structure of an RNA sequence is useful in many applications. Existing algorithms (based on dynamic programming) suffer from a major limitation: their runtimes scale cubically with the RNA length, and…

We revisit the task of computing the edit distance in sublinear time. In the $(k,K)$-gap edit distance problem the task is to distinguish whether the edit distance of two strings is at most $k$ or at least $K$. It has been established by…

We consider the following model for sampling pairs of strings: $s_1$ is a uniformly random bitstring of length $n$, and $s_2$ is the bitstring arrived at by applying substitutions, insertions, and deletions to each bit of $s_1$ with some…

We study edit distance computation with preprocessing: the preprocessing algorithm acts on each string separately, and then the query algorithm takes as input the two preprocessed strings. This model is inspired by scenarios where we would…

We consider the problem of determining if a sequence of parentheses is well parenthesized, with a depth of at most h. We denote this language as $Dyck_h$. We study the quantum query complexity of this problem for different h as function of…

Given two strings $A[1..n]$ and $B[1..m]$, and a set of operations allowed to edit the strings, the edit distance between $A$ and $B$ is the minimum number of operations required to transform $A$ into $B$. Sequentially, a standard Dynamic…

Dyck reachability is the standard formulation of a large domain of static analyses, as it achieves the sweet spot between precision and efficiency, and has thus been studied extensively. Interleaved Dyck reachability (denoted $D_k\odot…

Edit distance is an important measure of string similarity. It counts the number of insertions, deletions and substitutions one has to make to a string $x$ to get a string $y$. In this paper we design an almost linear-size sketching scheme…

The edit distance between two strings is defined as the smallest number of insertions, deletions, and substitutions that need to be made to transform one of the strings to another one. Approximating edit distance in subquadratic time is…

Knapsack and Partition are two important additive problems whose fine-grained complexities in the $(1-\varepsilon)$-approximation setting are not yet settled. In this work, we make progress on both problems by giving improved algorithms. -…

A fundamental algorithmic problem at the heart of static analysis is Dyck reachability. The input is a graph where the edges are labeled with different types of opening and closing parentheses, and the reachability information is computed…

We consider the recognition problem of the Dyck Language generalized for multiple types of brackets. We provide an algorithm with quantum query complexity $O(\sqrt{n}(\log n)^{0.5k})$, where $n$ is the length of input and $k$ is the maximal…

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…

Unbalanced translocations are among the most frequent chromosomal alterations, accounted for 30\% of all losses of heterozygosity, a major genetic event causing inactivation of tumor suppressor genes. Despite of their central role in…

We consider the problem of matching a metric space $(X,d_X)$ of size $k$ with a subspace of a metric space $(Y,d_Y)$ of size $n \geq k$, assuming that these two spaces have constant doubling dimension $\delta$. More precisely, given an…

This paper is concerned with practical implementations of approximate string dictionaries that allow edit errors. In this problem, we have as input a dictionary $D$ of $d$ strings of total length $n$ over an alphabet of size $\sigma$. Given…

We study approximate-near-neighbor data structures for time series under the continuous Fr\'echet distance. For an attainable approximation factor $c>1$ and a query radius $r$, an approximate-near-neighbor data structure can be used to…

Tree edit distance is a well-studied measure of dissimilarity between rooted trees with node labels. It can be computed in $O(n^3)$ time [Demaine, Mozes, Rossman, and Weimann, ICALP 2007], and fine-grained hardness results suggest that the…

We show how to compute the edit distance between two strings of length n up to a factor of 2^{\~O(sqrt(log n))} in n^(1+o(1)) time. This is the first sub-polynomial approximation algorithm for this problem that runs in near-linear time,…