Related papers: Upper and lower bounds for dynamic data structures…
We consider a class of pattern matching problems where a normalising transformation is applied at every alignment. Normalised pattern matching plays a key role in fields as diverse as image processing and musical information processing…
Exact pattern matching in labeled graphs is the problem of searching paths of a graph $G=(V,E)$ that spell the same string as the pattern $P[1..m]$. This basic problem can be found at the heart of more complex operations on variation graphs…
Text-to-pattern distance is a fundamental problem in string matching, where given a pattern of length $m$ and a text of length $n$, over an integer alphabet, we are asked to compute the distance between pattern and the text at every…
Pattern matching is a fundamental process in almost every scientific domain. The problem involves finding the positions of a given pattern (usually of short length) in a reference stream of data (usually of large length). The matching can…
Error Tree is a novel tree structure that is mainly oriented to solve the approximate pattern matching problems, Hamming and edit distances, as well as the wildcards matching problem. The input is a text of length $n$ over a fixed alphabet…
Previous work on Dynamic Complexity has established that there exist dynamic constant-time parallel algorithms for regular tree languages and context-free languages under label or symbol changes. However, these algorithms were not developed…
We develop a new technique for proving cell-probe lower bounds on dynamic data structures. This technique enables us to prove an amortized randomized Omega(lg n) lower bound per operation for several data structural problems on n elements,…
This paper proves the first super-logarithmic lower bounds on the cell probe complexity of dynamic boolean (a.k.a. decision) data structure problems, a long-standing milestone in data structure lower bounds. We introduce a new method for…
In this work, we prove a $\tilde{\Omega}(\lg^{3/2} n )$ unconditional lower bound on the maximum of the query time and update time for dynamic data structures supporting reachability queries in $n$-node directed acyclic graphs under edge…
Since 1989, the best known lower bound on static data structures was Siegel's classical cell sampling lower bound. Siegel showed an explicit problem with $n$ inputs and $m$ possible queries such that every data structure that answers…
Geometric data structures have been extensively studied in the regime where the dimension is much smaller than the number of input points. But in many scenarios in Machine Learning, the dimension can be much higher than the number of points…
We study the classical approximate string matching problem, that is, given strings $P$ and $Q$ and an error threshold $k$, find all ending positions of substrings of $Q$ whose edit distance to $P$ is at most $k$. Let $P$ and $Q$ have…
We present the first data structures that maintain near optimal maximum cardinality and maximum weighted matchings on sparse graphs in sublinear time per update. Our main result is a data structure that maintains a $(1+\epsilon)$…
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…
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…
In this work, we address the problem of approximate pattern matching with wildcards. Given a pattern $P$ of length $m$ containing $D$ wildcards, a text $T$ of length $n$, and an integer $k$, our objective is to identify all fragments of $T$…
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…
We introduce data structures answering queries concerning the occurrences of patterns from a given dictionary $\mathcal{D}$ in fragments of a given string $T$ of length $n$. The dictionary is internal in the sense that each pattern in…
In this paper, we give a number of new exact algorithms and heuristics to compute linear boolean decompositions, and experimentally evaluate these algorithms. The experimental evaluation shows that significant improvements can be made with…
In this paper, we study the role non-adaptivity plays in maintaining dynamic data structures. Roughly speaking, a data structure is non-adaptive if the memory locations it reads and/or writes when processing a query or update depend only on…