Related papers: Bounded Weighted Edit Distance: Dynamic Algorithms…
The Word Mover's Distance (WMD) proposed by Kusner et al. is a distance between documents that takes advantage of semantic relations among words that are captured by their embeddings. This distance proved to be quite effective, obtaining…
In the $k$-Edit Circular Pattern Matching ($k$-Edit CPM) problem, we are given a length-$n$ text $T$, a length-$m$ pattern $P$, and a positive integer threshold $k$, and we are to report all starting positions of the substrings of $T$ that…
The trace reconstruction problem studies the number of noisy samples needed to recover an unknown string $\boldsymbol{x}\in\{0,1\}^n$ with high probability, where the samples are independently obtained by passing $\boldsymbol{x}$ through a…
The unordered tree edit distance is a natural metric to compute distances between trees without intrinsic child order, such as representations of chemical molecules. While the unordered tree edit distance is MAX SNP-hard in principle, it is…
We give an $\tilde O(n^2)$ time algorithm for computing the exact Dynamic Time Warping distance between two strings whose run-length encoding is of size at most $n$. This matches (up to log factors) the known (conditional) lower bound, and…
The deviation of the observed frequency of a word $w$ from its expected frequency in a given sequence $x$ is used to determine whether or not the word is avoided. This concept is particularly useful in DNA linguistic analysis. The value of…
Edit distance similarity search, also called approximate pattern matching, is a fundamental problem with widespread database applications. The goal of the problem is to preprocess $n$ strings of length $d$, to quickly answer queries $q$ of…
The Damerau-Levenshtein distance between two sequences is the minimum number of operations (deletions, insertions, substitutions, and adjacent transpositions) required to convert one sequence into another. Notwithstanding a long history of…
The Dynamic Time Warping (DTW) distance is a popular measure of similarity for a variety of sequence data. For comparing polygonal curves $\pi, \sigma$ in $\mathbb{R}^d$, it provides a robust, outlier-insensitive alternative to the…
In this work, we consider the problem of pattern matching under the dynamic time warping (DTW) distance motivated by potential applications in the analysis of biological data produced by the third generation sequencing. To measure the DTW…
We study the sensitivity of the Lempel-Ziv 77 compression algorithm to edits, showing how modifying a string $w$ can deteriorate or improve its compression. Our first result is a tight upper bound for $k$ edits: $\forall w' \in B(w,k)$, we…
In the decades-old Pattern Matching with Edits problem, given a length-$n$ string $T$ (the text), a length-$m$ string $P$ (the pattern), and a positive integer $k$ (the threshold), the task is to list the $k$-error occurrences of $P$ in…
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,…
We give a reduction from $(1+\varepsilon)$-approximate Earth Mover's Distance (EMD) to $(1+\varepsilon)$-approximate Closest Pair (CP). As a consequence, we improve the fastest known approximation algorithm for high-dimensional EMD. Here,…
Given a metric space $(X,d_X)$, the earth mover distance between two distributions over $X$ is defined as the minimum cost of a bipartite matching between the two distributions. The doubling dimension of a metric $(X, d_X)$ is the smallest…
We introduce Cautious Weight Decay (CWD), a one-line, optimizer-agnostic modification that applies weight decay only to parameter coordinates whose signs align with the optimizer update. Unlike standard decoupled decay, which implicitly…
A fundamental question in computational geometry is for a set of input points in the Euclidean space, that is subject to discrete changes (insertion/deletion of points at each time step), whether it is possible to maintain an approximate…
We study the online variant of the language distance problem for two classical formal languages, the language of palindromes and the language of squares, and for the two most fundamental distances, the Hamming distance and the edit…
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…
The text-to-pattern Hamming distances problem asks to compute the Hamming distances between a given pattern of length $m$ and all length-$m$ substrings of a given text of length $n\ge m$. We focus on the $k$-mismatch version of the problem,…