Related papers: Approximating Edit Distance in Near-Linear Time
We study the classic Text-to-Pattern Hamming Distances problem: given a pattern $P$ of length $m$ and a text $T$ of length $n$, both over a polynomial-size alphabet, compute the Hamming distance between $P$ and $T[i\, .\, . \, i+m-1]$ for…
The fundamental sparsest cut problem takes as input a graph $G$ together with the edge costs and demands, and seeks a cut that minimizes the ratio between the costs and demands across the cuts. For $n$-node graphs~$G$ of treewidth~$k$,…
We introduce a novel definition of approximate palindromes in strings, and provide an algorithm to find all maximal approximate palindromes in a string with up to $k$ errors. Our definition is based on the usual edit operations of…
In this paper we present the first provable approximate nearest-neighbor (ANN) algorithms for Bregman divergences. Our first algorithm processes queries in O(log^d n) time using O(n log^d n) space and only uses general properties of the…
In the $k$-cut problem, we are given an edge-weighted graph $G$ and an integer $k$, and have to remove a set of edges with minimum total weight so that $G$ has at least $k$ connected components. The current best algorithms are an…
The Dyck language, which consists of well-balanced sequences of parentheses, is one of the most fundamental context-free languages. The Dyck edit distance quantifies the number of edits (character insertions, deletions, and substitutions)…
Approximating the length of the longest increasing sequence (LIS) of an array is a well-studied problem. We study this problem in the data stream model, where the algorithm is allowed to make a single left-to-right pass through the array…
Several measures exist for string similarity, including notable ones like the edit distance and the indel distance. The former measures the count of insertions, deletions, and substitutions required to transform one string into another,…
Finding the length of the longest increasing subsequence (LIS) is a classic algorithmic problem. Let $n$ denote the size of the array. Simple $O(n\log n)$ algorithms are known for this problem. We develop a polylogarithmic time randomized…
The problem of computing the edit-distance between a string and a finite automaton arises in a variety of applications in computational biology, text processing, and speech recognition. This paper presents linear-space algorithms for…
The Swap-Insert Correction distance from a string $S$ of length $n$ to another string $L$ of length $m\geq n$ on the alphabet $[1..d]$ is the minimum number of insertions, and swaps of pairs of adjacent symbols, converting $S$ into $L$.…
Given an LZW/LZ78 compressed text, we want to find an approximate occurrence of a given pattern of length m. The goal is to achieve time complexity depending on the size n of the compressed representation of the text instead of its length.…
Dot plots are a standard method for local comparison of biological sequences. In a dot plot, a substring to substring distance is computed for all pairs of fixed-size windows in the input strings. Commonly, the Hamming distance is used…
The problem of finding \emph{distance} between \emph{pattern} of length $m$ and \emph{text} of length $n$ is a typical way of generalizing pattern matching to incorporate dissimilarity score. For both Hamming and $L_1$ distances only a…
We study the Euclidean minimum weight perfect matching problem for $n$ points in the plane. It is known that any deterministic approximation algorithm whose approximation ratio depends only on $n$ requires at least $\Omega(n \log n)$ time.…
We study sublinear time algorithms for estimating the size of maximum matching. After a long line of research, the problem was finally settled by Behnezhad [FOCS'22], in the regime where one is willing to pay an approximation factor of $2$.…
Described are two algorithms to find long approximate palindromes in a string, for example a DNA sequence. A simple algorithm requires O(n)-space and almost always runs in $O(k.n)$-time where n is the length of the string and k is the…
The algorithmic tasks of computing the Hamming distance between a given pattern of length $m$ and each location in a text of length $n$ is one of the most fundamental algorithmic tasks in string algorithms. Unfortunately, there is evidence…
Analyzing patterns in data streams generated by network traffic, sensor networks, or satellite feeds is a challenge for systems in which the available storage is limited. In addition, real data is noisy, which makes designing data stream…
We give an explicit (in particular, deterministic polynomial time) construction of subspaces X of R^N of dimension (1-o(1))N such that for every element x in X, |x|_1 and N^{1/2} |x|_2 are equivalent up to a factor of (log N)^{log log log…