Related papers: In-Place BWT and Lyndon Array Construction in Cons…
For a fixed regular language $L$, the enumeration of $L$-infixes is the following task: we are given an input word $w = a_1 \cdots a_n$ and we must enumerate the infixes of $w$ that belong to $L$, i.e., the pairs $i \leq j$ such that $a_i…
It is shown that a breadth-first search in a directed or undirected graph with $n$ vertices and $m$ edges can be carried out in $O(n+m)$ time with $n\log_2 3+O((\log n)^2)$ bits of working memory.
Effective Hamiltonians are usually constructed by using canonical transformations or projection techniques. In contrast to this, we present a method for systems with arbitrary Hilbert space based on the introduction of cumulants. Cumulants…
Some recent results have introduced external-memory algorithms to compute self-indexes of a set of strings, mainly via computing the Burrows-Wheeler Transform (BWT) of the input strings. The motivations for those results stem from…
Continuing the recent trend, in this article we design several space-efficient algorithms for two well-known graph search methods. Both these search methods share the same name {\it breadth-depth search} (henceforth {\sf BDS}), although…
Recently, Holt and McMillan [Bionformatics 2014, ACM-BCB 2014] have proposed a simple and elegant algorithm to merge the Burrows-Wheeler transforms of a family of strings. In this paper we show that the H&M algorithm can be improved so…
In a \emph{weighted sequence}, for every position of the sequence and every letter of the alphabet a probability of occurrence of this letter at this position is specified. Weighted sequences are commonly used to represent imprecise or…
The quest for efficient sorting is ongoing, and we will explore a graph-based stable sorting strategy, in particular employing comparison graphs. We use the topological sort to map the comparison graph to a linear domain, and we can…
In this paper, we present the first study of the computational complexity of converting an automata-based text index structure, called the Compact Directed Acyclic Word Graph (CDAWG), of size $e$ for a text $T$ of length $n$ into other text…
Given a sequence of integers, we want to find a longest increasing subsequence of the sequence. It is known that this problem can be solved in $O(n \log n)$ time and space. Our goal in this paper is to reduce the space consumption while…
Given a pair of number fields with isomorphic rings of adeles, we construct bijections between objects associated to the pair. For instance we construct an isomorphism of Brauer groups that commutes with restriction. We additionally…
In this paper, we address the design of high spectral-efficiency Barnes-Wall (BW) lattice codes which are amenable to low-complexity decoding in additive white Gaussian noise (AWGN) channels. We propose a new method of constructing complex…
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…
We introduce a new algorithm for constructing the generalized suffix array of a collection of highly similar strings. As a first step, we construct a compressed representation of the matching statistics of the collection with respect to a…
We evaluate the influence of different alphabet orderings on the Lyndon factorization of a string. Experiments with Pizza & Chili datasets show that for most alphabet reorderings, the number of Lyndon factors is usually small, and the…
Representing visual data using compact binary codes is attracting increasing attention as binary codes are used as direct indices into hash table(s) for fast non-exhaustive search. Recent methods show that ranking binary codes using…
Given a totally finite ordered alphabet $ A $, endowing the set of words over $ A $ with the alternating lexicographic order, we define a new class of Lyndon words. We study the fundamental properties of the associated symbolic dynamical…
We show how to construct a dynamic ordered dictionary, supporting insert/delete/rank/select on a set of $n$ elements from a universe of size $U$, that achieves the optimal amortized expected time complexity of $O(1 + \log n / \log \log U)$,…
We give sufficient conditions for left- and bi-orderability of fundamental groups of Ore categories in terms of indirect factors, including Thompson groups and many of their generalizations. Besides recovering known results, we prove that…
The left patience sorting (lPS) monoid, also known in the literature as the Bell monoid, and the right patient sorting (rPS) monoid are introduced by defining certain congruences on words. Such congruences are constructed using insertion…