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The Suffix Array SA(S) of a string S[1 ... n] is an array containing all the suffixes of S sorted by lexicographic order. The suffix array is one of the most well known indexing data structures, and it functions as a key tool in many string…

Data Structures and Algorithms · Computer Science 2020-07-15 Amihood Amir , Itai Boneh

Suffix trees are key and efficient data structure for solving string problems. A suffix tree is a compressed trie containing all the suffixes of a given text of length $n$ with a linear construction cost. In this work, we introduce an…

Data Structures and Algorithms · Computer Science 2024-06-04 Anas Al-okaily

The longest common prefix (LCP) array is a versatile auxiliary data structure in indexed string matching. It can be used to speed up searching using the suffix array (SA) and provides an implicit representation of the topology of an…

Data Structures and Algorithms · Computer Science 2016-03-09 German Tischler

The notion of Lyndon word and Lyndon factorization has shown to have unexpected applications in theory as well in developing novel algorithms on words. A counterpart to these notions are those of inverse Lyndon word and inverse Lyndon…

Formal Languages and Automata Theory · Computer Science 2024-10-30 Paola Bonizzoni , Clelia De Felice , Brian Riccardi , Rocco Zaccagnino , Rosalba Zizza

In this article, we give a precise mathematical meaning to `linear? time' that matches experimental behaviour of the algorithm. The sorting algorithm is not our own, it is a variant of radix sort with counting sort as a subroutine. The true…

Computational Complexity · Computer Science 2019-01-01 Laurent Lyaudet

A generalized lexicographic order on words is a lexicographic order where the total order of the alphabet depends on the position of the comparison. A generalized Lyndon word is a finite word which is strictly smallest among its class of…

Combinatorics · Mathematics 2019-06-21 Amanda Burcroff , Eric Winsor

It is a fundamental property of non-letter Lyndon words that they can be expressed as a concatenation of two shorter Lyndon words. This leads to a naive lower bound log_{2}(n)} + 1 for the number of distinct Lyndon factors that a Lyndon…

Combinatorics · Mathematics 2012-11-19 Kalle Saari

The process of sorting the suffixes of a text plays a fundamental role in Text Algorithms. They are used for instance in the constructions of the Burrows-Wheeler transform and the suffix array, widely used in several fields of Computer…

Data Structures and Algorithms · Computer Science 2013-06-07 Sabrina Mantaci , Antonio Restivo , Giovanna Rosone , Marinella Sciortino

We give efficient algorithms for ranking Lyndon words of length $n$ over an alphabet of size $\sigma$. The rank of a Lyndon word is its position in the sequence of lexicographically ordered Lyndon words of the same length. The outputs are…

Data Structures and Algorithms · Computer Science 2023-12-13 Tomasz Kociumaka , Jakub Radoszewski , Wojciech Rytter

This paper presents a general technique for optimally transforming any dynamic data structure that operates on atomic and indivisible keys by constant-time comparisons, into a data structure that handles unbounded-length keys whose…

Data Structures and Algorithms · Computer Science 2013-06-04 Amihood Amir , Gianni Franceschini , Roberto Grossi , Tsvi Kopelowitz , Moshe Lewenstein , Noa Lewenstein

Suffix arrays encode the lexicographical order of all suffixes of a text and are often combined with the Longest Common Prefix array (LCP) to simulate navigational queries on the suffix tree in reduced space. In space-critical applications…

Data Structures and Algorithms · Computer Science 2017-11-02 Nicola Prezza

The suffix trees are fundamental data structures for various kinds of string processing. The suffix tree of a text string $T$ of length $n$ has $O(n)$ nodes and edges, and the string label of each edge is encoded by a pair of positions in…

Data Structures and Algorithms · Computer Science 2023-12-06 Diptarama Hendrian , Takuya Takagi , Shunsuke Inenaga , Keisuke Goto , Mitsuru Funakoshi

A seed in a word is a relaxed version of a period in which the occurrences of the repeating subword may overlap. We show a linear-time algorithm computing a linear-size representation of all the seeds of a word (the number of seeds might be…

Data Structures and Algorithms · Computer Science 2019-03-15 Tomasz Kociumaka , Marcin Kubica , Jakub Radoszewski , Wojciech Rytter , Tomasz Walen

We show how to modify the linear-time construction algorithm for suffix arrays based on induced sorting (Nong et al., DCC'09) such that it computes the array of longest common prefixes (LCP-array) as well. Practical tests show that this…

Data Structures and Algorithms · Computer Science 2011-01-19 Johannes Fischer

Given a string $T$, it is known that its suffix tree can be represented using the compact directed acyclic word graph (CDAWG) with $e_T$ arcs, taking overall $O(e_T+e_{{\overline{T}}})$ words of space, where ${\overline{T}}$ is the reverse…

Data Structures and Algorithms · Computer Science 2017-05-25 Djamal Belazzougui , Fabio Cunial

In the past thirty years, numerous algorithms for building the suffix array of a string have been proposed. In 2021, the notion of suffix array was extended from strings to DFAs, and it was shown that the resulting data structure can be…

Data Structures and Algorithms · Computer Science 2023-10-10 Nicola Cotumaccio

We introduce a new class of straight-line programs (SLPs), named the Lyndon SLP, inspired by the Lyndon trees (Barcelo, 1990). Based on this SLP, we propose a self-index data structure of $O(g)$ words of space that can be built from a…

Data Structures and Algorithms · Computer Science 2020-04-28 Kazuya Tsuruta , Dominik Köppl , Yuto Nakashima , Shunsuke Inenaga , Hideo Bannai , Masayuki Takeda

Covers being one of the most popular form of regularities in strings, have drawn much attention over time. In this paper, we focus on the problem of linear time inference of strings from cover arrays using the least sized alphabet possible.…

Data Structures and Algorithms · Computer Science 2011-08-30 Tanaeem M. Moosa , Sumaiya Nazeen , M. Sohel Rahman , Rezwana Reaz

The suffix array is a fundamental data structure for many applications that involve string searching and data compression. Designing time/space-efficient suffix array construction algorithms has attracted significant attention and…

Data Structures and Algorithms · Computer Science 2018-11-12 Zhize Li , Jian Li , Hongwei Huo

We consider an index data structure for similar strings. The generalized suffix tree can be a solution for this. The generalized suffix tree of two strings $A$ and $B$ is a compacted trie representing all suffixes in $A$ and $B$. It has…

Data Structures and Algorithms · Computer Science 2013-05-09 Joong Chae Na , Heejin Park , Maxime Crochemore , Jan Holub , Costas S. Iliopoulos , Laurent Mouchard , Kunsoo Park