Related papers: The complexity of Shortest Common Supersequence fo…
Let $M$ be a real $r\times c$ matrix and let $k$ be a positive integer. In the column subset selection problem (CSSP), we need to minimize the quantity $\|M-SA\|$, where $A$ can be an arbitrary $k\times c$ matrix, and $S$ runs over all…
One of the most fundamental method for comparing two given strings $A$ and $B$ is the longest common subsequence (LCS), where the task is to find (the length) of an LCS of $A$ and $B$. In this paper, we deal with the STR-IC-LCS problem…
The problem of finding a longest common subsequence of two main sequences with some constraint that must be a substring of the result (STR-IC-LCS) was formulated recently. It is a variant of the constrained longest common subsequence…
The longest square subsequence (LSS) problem consists of computing a longest subsequence of a given string $S$ that is a square, i.e., a longest subsequence of form $XX$ appearing in $S$. It is known that an LSS of a string $S$ of length…
For a graph G = (V,E) where each vertex is coloured by one of k colours, consider a subset C of V such that for each vertex v in V\C, its set of nearest neighbours in C contains at least one vertex of the same colour as v. Such a C is…
Cadences are structurally maximal arithmetic progressions of indices corresponding to equal characters in an underlying string. This paper provides a polynomial time detection algorithm for 3-cadences in grammar-compressed binary strings.…
In this paper we define a new problem, motivated by computational biology, $LCSk$ aiming at finding the maximal number of $k$ length $substrings$, matching in both input strings while preserving their order of appearance. The traditional…
Let $\Sigma$ be a countable alphabet. For $r\geq 1$, an infinite sequence $s$ with characters from $\Sigma$ is called $r$-quasi-regular, if for each $\sigma\in\Sigma$ the ratio of the longest to shortest interval between consecutive…
Given a set of $t$ words of length $n$ over a $k$-letter alphabet, it is proved that there exists a common subsequence among two of them of length at least $\frac{n}{k}+cn^{1-1/(t-k-2)}$, for some $c>0$ depending on $k$ and $t$. This is…
Constant-recursive sequences are those which satisfy a linear recurrence, so that later terms can be obtained as a linear combination of the previous ones. The rank of a constant-recursive sequence is the minimal number of previous terms…
One of the most critical problems in the field of string algorithms is the longest common subsequence problem (LCS). The problem is NP-hard for an arbitrary number of strings but can be solved in polynomial time for a fixed number of…
We give a near-optimal quantum algorithm for the longest common substring (LCS) problem between two run-length encoded (RLE) strings, with the assumption that the prefix-sums of the run-lengths are given. Our algorithm costs…
Longest Common Substring (LCS) is an important text processing problem, which has recently been investigated in the quantum query model. The decisional version of this problem, LCS with threshold $d$, asks whether two length-$n$ input…
Multiple sequence alignment (MSA) has been one of the most important problems in bioinformatics for more decades and it is still heavily examined by many mathematicians and biologists. However, mostly because of the practical motivation of…
We study the computational complexity of short sentences in Presburger arithmetic (Short-PA). Here by "short" we mean sentences with a bounded number of variables, quantifiers, inequalities and Boolean operations; the input consists only of…
A large family of words must contain two words that are similar. We investigate several problems where the measure of similarity is the length of a common subsequence. We construct a family of n^{1/3} permutations on n letters, such that…
We study the computational complexity of various problems related to synchronization of weakly acyclic automata, a subclass of widely studied aperiodic automata. We provide upper and lower bounds on the length of a shortest word…
A supersequence over a finite set is a sequence that contains as subsequence all permutations of the set. This paper defines an infinite array of methods to create supersequences of decreasing lengths. This yields the shortest known…
A repetition free Longest Common Subsequence (LCS) of two sequences x and y is an LCS of x and y where each symbol may appear at most once. Let R denote the length of a repetition free LCS of two sequences of n symbols each one chosen…
Computation on compressed strings is one of the key approaches to processing massive data sets. We consider local subsequence recognition problems on strings compressed by straight-line programs (SLP), which is closely related to…