Related papers: Minimizers in Semi-Dynamic Strings
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…
Despite the rich existing literature about minimax optimization in continuous settings, only very partial results of this kind have been obtained for combinatorial settings. In this paper, we fill this gap by providing a characterization of…
In this paper we present a simple but powerful subgraph sampling primitive that is applicable in a variety of computational models including dynamic graph streams (where the input graph is defined by a sequence of edge/hyperedge insertions…
In this paper, we present the following results: (1) We propose a new \emph{dynamic compressed index} of $O(w)$ space, that supports searching for a pattern $P$ in the current text in $O(|P| f(M,w) + \log w \log |P| \log^* M (\log N + \log…
A choice dictionary is a data structure that can be initialized with a parameter $n\in\{1,2,\ldots\}$ and subsequently maintains an initially empty subset $S$ of $\{1,\ldots,n\}$ under insertion, deletion, membership queries and an…
In the longest common substring (LCS) problem, we are given two strings $S$ and $T$, each of length at most $n$, and we are asked to find a longest string occurring as a fragment of both $S$ and $T$. This is a classical and well-studied…
This paper studies the \emph{subset sampling} problem. The input is a set $\mathcal{S}$ of $n$ records together with a function $\textbf{p}$ that assigns each record $v\in\mathcal{S}$ a probability $\textbf{p}(v)$. A query returns a random…
Given a stream of items each associated with a numerical value, its edit distance to monotonicity is the minimum number of items to remove so that the remaining items are non-decreasing with respect to the numerical value. The space…
Given a string $S$ of length $N$ on a fixed alphabet of $\sigma$ symbols, a grammar compressor produces a context-free grammar $G$ of size $n$ that generates $S$ and only $S$. In this paper we describe data structures to support the…
Given a dynamic set $K$ of $k$ strings of total length $n$ whose characters are drawn from an alphabet of size $\sigma$, a keyword dictionary is a data structure built on $K$ that provides locate, prefix search, and update operations on…
Kosaraju in ``Computation of squares in a string'' briefly described a linear-time algorithm for computing the minimal squares starting at each position in a word. Using the same construction of suffix trees, we generalize his result and…
Dynamically maintaining the minimum cut in a graph $G$ under edge insertions and deletions is a fundamental problem in dynamic graph algorithms for which no conditional lower bound on the time per operation exists. In an $n$-node graph the…
We study graph partitioning problems from a min-max perspective, in which an input graph on n vertices should be partitioned into k parts, and the objective is to minimize the maximum number of edges leaving a single part. The two main…
Given a string $S$ of length $n$, the classic string indexing problem is to preprocess $S$ into a compact data structure that supports efficient subsequent pattern queries. In the \emph{deterministic} variant the goal is to solve the string…
A suffixient set is a novel combinatorial object that captures the essential information of repetitive strings in a way that, provided with a random access mechanism, supports various forms of pattern matching. In this paper, we study the…
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…
The problem of storing a set of strings --- a string dictionary --- in compact form appears naturally in many cases. While classically it has represented a small part of the whole data to be processed (e.g., for Natural Language processing…
We propose novel algorithms for sequence prediction based on ideas from stringology. These algorithms are time and space efficient and satisfy mistake bounds related to particular stringological complexity measures of the sequence. In this…
Given a set of strings over a specified alphabet, identifying a median or consensus string that minimizes the total distance to all input strings is a fundamental data aggregation problem. When the Hamming distance is considered as the…
Lexicographically minimal string rotation is a fundamental problem in string processing that has recently garnered significant attention in quantum computing. Near-optimal quantum algorithms have been proposed for solving this problem,…