Related papers: In-Place BWT and Lyndon Array Construction in Cons…
The LCP array is an important tool in stringology, allowing to speed up pattern matching algorithms and enabling compact representations of the suffix tree. Recently, Conte et al. [DCC 2023] and Cotumaccio et al. [SPIRE 2023] extended the…
The Burrows-Wheeler Transform is a string transformation that plays a fundamental role for the design of self-indexing compressed data structures. Over the years, researchers have successfully extended this transformation outside the…
We continue developing the theory around the twin-width of totally ordered binary structures, initiated in the previous paper of the series. We first introduce the notion of parity and linear minors of a matrix, which consists of…
An absent word of a word y of length n is a word that does not occur in y. It is a minimal absent word if all its proper factors occur in y. Minimal absent words have been computed in genomes of organisms from all domains of life; their…
A constant-workspace algorithm has read-only access to an input array and may use only O(1) additional words of $O(\log n)$ bits, where $n$ is the size of the input. We assume that a simple $n$-gon is given by the ordered sequence of its…
In the first place, a novel, yet straightforward in-place integer value-sorting algorithm is presented. It sorts in linear time using constant amount of additional memory for storing counters and indices beside the input array. The…
This paper describes new, simple, recursive methods of construction for orientable sequences, i.e. periodic binary sequences in which any n-tuple occurs at most once in a period in either direction. As has been previously described, such…
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…
We enumerate total cyclic orders on $\left\{1,\ldots,n\right\}$ where we prescribe the relative cyclic order of consecutive triples $(i,{i+1},{i+2})$, these integers being taken modulo $n$. In some cases, the problem reduces to the…
The Burrows-Wheeler transform (BWT) is a string transformation that enhances string indexing and compressibility. Cotumaccio and Prezza [SODA '21] extended this transformation to nondeterministic finite automata (NFAs) through…
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…
We present a simple algorithm for computing the document array given a string collection and its suffix array as input. Our algorithm runs in linear time using constant additional space for strings from constant alphabets.
The wavelet tree (Grossi et al. [SODA, 2003]) and wavelet matrix (Claude et al. [Inf. Syst., 47:15--32, 2015]) are compact indices for texts over an alphabet $[0,\sigma)$ that support rank, select and access queries in $O(\lg \sigma)$ time.…
In this note we consider the concept of alphabet ordering in the context of string factoring. We propose a greedy-type algorithm which produces Lyndon factorizations with small numbers of factors along with a modification for large numbers…
We present an improved orderly algorithm for constructing all unlabelled lattices up to a given size, that is, an algorithm that constructs the minimal element of each isomorphism class relative to some total order. Our algorithm employs a…
The set of permutations on a finite set can be given the lattice structure known as the weak Bruhat order. This lattice structure is generalized to the set of words on a fixed alphabet $\Sigma$ = {x,y,z,...}, where each letter has a fixed…
The suffix tree is a very important data structure in string processing, but it suffers from a huge space consumption. In large-scale applications, compressed suffix trees (CSTs) are therefore used instead. A CST consists of three…
This paper deals with simultaneously fast and in-place algorithms for formulae where the result has to be linearly accumulated: some of the output variables are also input variables, linked by a linear dependency. Fundamental examples…
Recently, several works have shown that natural modifications of the classical conditional gradient method (aka Frank-Wolfe algorithm) for constrained convex optimization, provably converge with a linear rate when: i) the feasible set is a…
Generating irreducible site-occupancy configurations by taking advantage of crystal symmetry is a ubiquitous method for accelerating of disordered structure prediction, which plays an important role in condensed matter physics and material…