Related papers: Computing alignment plots efficiently
Conformance checking encompasses a body of process mining techniques which aim to find and describe the differences between a process model capturing the expected process behavior and a corresponding event log recording the observed…
In a way similar to the string-to-string correction problem we address time series similarity in the light of a time-series-to-time-series-correction problem for which the similarity between two time series is measured as the minimum cost…
Random graph matching refers to recovering the underlying vertex correspondence between two random graphs with correlated edges; a prominent example is when the two random graphs are given by Erd\H{o}s-R\'{e}nyi graphs $G(n,\frac{d}{n})$.…
Dynamic Time Warping (DTW) is a well-known similarity measure for time series. The standard dynamic programming approach to compute the DTW distance of two length-$n$ time series, however, requires~$O(n^2)$ time, which is often too slow for…
We present parallel algorithms for exact and approximate pattern matching with suffix arrays, using a CREW-PRAM with $p$ processors. Given a static text of length $n$, we first show how to compute the suffix array interval of a given…
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…
Graph similarity computation is one of the core operations in many graph-based applications, such as graph similarity search, graph database analysis, graph clustering, etc. Since computing the exact distance/similarity between two graphs…
The graph isomorphism, subgraph isomorphism, and graph edit distance problems are combinatorial problems with many applications. Heuristic exact and approximate algorithms for each of these problems have been developed for different kinds…
Graph edit distance / similarity is widely used in many tasks, such as graph similarity search, binary function analysis, and graph clustering. However, computing the exact graph edit distance (GED) or maximum common subgraph (MCS) between…
A function $\varphi:\{0,1\}^n \to \{0,1\}^N$ is called an isometric embedding of the $n$-dimensional Hamming metric space to the $N$-dimensional edit metric space if, for all $x,y\in\{0,1\}^n$, the Hamming distance between $x$ and $y$ is…
Searching for all occurrences of a pattern in a text is a fundamental problem in computer science with applications in many other fields, like natural language processing, information retrieval and computational biology. In the last two…
Given $x \in (\mathbb{R}_{\geq 0})^{\binom{[n]}{2}}$ recording pairwise distances, the METRIC VIOLATION DISTANCE (MVD) problem asks to compute the $\ell_0$ distance between $x$ and the metric cone; i.e., modify the minimum number of entries…
We consider the Maximum-weight Matching (MWM) problem in the streaming sliding window model of computation. In this model, the input consists of a sequence of weighted edges on a given vertex set $V$ of size $n$. The objective is to…
In this paper we investigate the \emph{approximate string matching problem} when the allowed edit operations are \emph{non-overlapping unbalanced translocations of adjacent factors}. Such kind of edit operations take place when two adjacent…
Gromov--Wasserstein (GW) distances compare graphs, shapes, and point clouds through internal distances, without requiring a common coordinate system. This invariance is powerful, but discrete GW is a nonconvex quadratic optimal transport…
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…
Document alignment aims to identify pairs of documents in two distinct languages that are of comparable content or translations of each other. Such aligned data can be used for a variety of NLP tasks from training cross-lingual…
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…
The $k$-mismatch problem consists in computing the Hamming distance between a pattern $P$ of length $m$ and every length-$m$ substring of a text $T$ of length $n$, if this distance is no more than $k$. In many real-world applications, any…
Given strings $P$ of length $m$ and $T$ of length $n$ over an alphabet of size $\sigma$, the string matching with $k$-mismatches problem is to find the positions of all the substrings in $T$ that are at Hamming distance at most $k$ from…