Related papers: Efficient Algorithms to Compute Closed Substrings
We show that the compressed suffix array and the compressed suffix tree for a string of length $n$ over an integer alphabet of size $\sigma\leq n$ can both be built in $O(n)$ (randomized) time using only $O(n\log\sigma)$ bits of working…
Recently, Armstrong, Guzm\'an, and Sing Long (2021), presented an optimal $O(n^2)$ time algorithm for strict circular seriation (called also the recognition of strict quasi-circular Robinson spaces). In this paper, we give a very simple…
The rank and select operations over a string of length n from an alphabet of size $\sigma$ have been used widely in the design of succinct data structures. In many applications, the string itself need be maintained dynamically, allowing…
Neighborhood graphs are gaining popularity as a concise data representation in machine learning. However, naive graph construction by pairwise distance calculation takes $O(n^2)$ runtime for $n$ data points and this is prohibitively slow…
We prove that given a discrete space with $n$ points which is either embedded in a system of $k$ trees, or the Cartesian product of $k$ trees, we can compute all eccentricities in ${\cal O}(2^{{\cal O}(k\log{k})}(N+n)^{1+o(1)})$ time, where…
We study the exact counting problem for all lattice rectangles contained in the square $[0,n)\times[0,n)$, including non-axis-parallel ones. Starting from the standard parametrization by a primitive direction $(u,v)$ and two side lengths,…
We obtain two new algorithms for partial fraction decompositions; the first is over algebraically closed fields, and the second is over general fields. These algorithms takes $O(M^2)$ time, where $M$ is the degree of the denominator of the…
In this paper we present novel algorithms for several multidimensional data processing problems. We consider problems related to the computation of restricted clusters and of the diameter of a set of points using a new distance function. We…
The edit distance is a way of quantifying how similar two strings are to one another by counting the minimum number of character insertions, deletions, and substitutions required to transform one string into the other. In this paper we…
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…
In this paper, a fully compressed pattern matching problem is studied. The compression is represented by straight-line programs (SLPs), i.e. a context-free grammars generating exactly one string; the term fully means that both the pattern…
Calculating the length of a longest common subsequence (LCS) of two strings $A$ and $B$ of length $n$ and $m$ is a classic research topic, with many worst-case oriented results known. We present two algorithms for LCS length calculation…
Mutually connected components (MCCs) play an important role as a measure of resilience in the study of interdependent networks. Despite their importance, an efficient algorithm to obtain the statistics of all MCCs during the removal of…
Given a context free language $\mathcal{L(G)}$ over alphabet $\Sigma$ and a string $s \in \Sigma^*$, {\em the language edit distance} problem seeks the minimum number of edits (insertions, deletions and substitutions) required to convert…
The convolution between a text string $S$ of length $N$ and a pattern string $P$ of length $m$ can be computed in $O(N \log m)$ time by FFT. It is known that various types of approximate string matching problems are reducible to…
We show that the compressed suffix array and the compressed suffix tree of a string $T$ can be built in $O(n)$ deterministic time using $O(n\log\sigma)$ bits of space, where $n$ is the string length and $\sigma$ is the alphabet size.…
In this paper we consider the problem of computing the longest common abelian factor (LCAF) between two given strings. We present a simple $O(\sigma~ n^2)$ time algorithm, where $n$ is the length of the strings and $\sigma$ is the alphabet…
We consider a range of simply stated dynamic data structure problems on strings. An update changes one symbol in the input and a query asks us to compute some function of the pattern of length $m$ and a substring of a longer text. We give…
The Longest Common Subsequence (LCS) of two strings is a fundamental string similarity measure with a classical dynamic programming solution taking quadratic time. Despite significant efforts, little progress was made in improving the…
The problem called "String reconstruction from substrings" is a mathematical model of sequencing by hybridization that plays an important role in DNA sequencing. In this problem, we are given a blackbox oracle holding an unknown string…