Related papers: On Arithmetically Progressed Suffix Arrays and rel…
We characterize the clustering of a word under the Burrows-Wheeler transform in terms of the resolution of a bounded number of bispecial factors belonging to the language generated by all its powers. We use this criterion to compute, in…
String matching is the problem of finding all the occurrences of a pattern in a text. It has been intensively studied and the Boyer-Moore string matching algorithm is probably one of the most famous solution to this problem. This algorithm…
Given any two sequences of complex numbers, we establish simple relations between their binomial convolution and the binomial convolution of their individual binomial transforms. We employ these relations to derive new identities involving…
In this paper, we propose a new indexing structure for parameterized strings which we call PLSTs, by generalizing linear-size suffix tries for ordinary strings. Two parameterized strings are said to match if there is a bijection on the…
We study how the application of injective morphisms affects the number $r$ of equal-letter runs in the Burrows-Wheeler Transform (BWT). This parameter has emerged as a key repetitiveness measure in compressed indexing. We focus on the…
Based on the Breslauer-Italiano online suffix tree construction algorithm (2013) with double logarithmic worst-case guarantees on the update time per letter, we develop near-real-time algorithms for several classical problems on strings,…
We investigate the state complexity of the permutation operation, or the commutative closure, on Alphabetical Pattern Constraints (APC). This class corresponds to level $3/2$ of the Straubing-Th{\'e}rien Hierarchy and includes the finite,…
The Burrows-Wheeler-Transform (BWT), a reversible string transformation, is one of the fundamental components of many current data structures in string processing. It is central in data compression, as well as in efficient query algorithms…
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…
We show that essentially the Fibonacci sequence is the unique binary recurrence which contains infinitely many three-term arithmetic progressions. A criterion for general linear recurrences having infinitely many three-term arithmetic…
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…
A permutation p is realized by the shift on N symbols if there is an infinite word on an N-letter alphabet whose successive left shifts by one position are lexicographically in the same relative order as p. The set of realized permutations…
We give a characterization for the binary linear constant weight codes by using the symmetric difference of the supports of the codewords. This characterization gives a correspondence between the set of binary linear constant weight codes…
$V$-order is a global order on strings related to Unique Maximal Factorization Families (UMFFs), which are themselves generalizations of Lyndon words. $V$-order has recently been proposed as an alternative to lexicographical order in the…
In this paper I present a conjecture for a recursive algorithm that finds each permutation of combining two sets of objects (AKA the Shuffle Product). This algorithm provides an efficient way to navigate this problem, as each atomic…
Indexing of very large collections of strings such as those produced by the widespread sequencing technologies, heavily relies on multi-string generalizations of the Burrows-Wheeler Transform (BWT), and for this problem various in-memory…
The Burrows-Wheeler Transform (BWT) is an efficient invertible text transformation algorithm with the properties of tending to group identical characters together in a run, and enabling search of the text. This transformation has extensive…
The suffix array $SA[1..n]$ of a text $T$ of length $n$ is a permutation of $\{1,\ldots,n\}$ describing the lexicographical ordering of suffixes of $T$, and it is considered to be among of the most important data structures in string…
We develop a nonstandard approach to exploring polynomials associated with peaks and runs of permutations. With the aid of a context-free grammar, or a set of substitution rules, one can perform a symbolic calculus, and the computation…
The k-spectrum of a string is the set of all distinct substrings of length k occurring in the string. K-spectra have many applications in bioinformatics including pseudoalignment and genome assembly. The Spectral Burrows-Wheeler Transform…