Related papers: String Inference from the LCP Array
We first describe three algorithms for computing the Lyndon array that have been suggested in the literature, but for which no structured exposition has been given. Two of these algorithms execute in quadratic time in the worst case, the…
Phylogenetic trees and networks are leaf-labelled graphs that are used to describe evolutionary histories of species. The Tree Containment problem asks whether a given phylogenetic tree is embedded in a given phylogenetic network. Given a…
Motivated by mass-spectrometry protein sequencing, we consider a simply-stated problem of reconstructing a string from the multiset of its substring compositions. We show that all strings of length 7, one less than a prime, or one less than…
Given two messages - as linear sequences of letters, it is immediate to determine whether one can be transformed into the other by simple substitution cipher of the letters. On the other hand, if the letters are carried as labels on nodes…
In this paper we present algorithms for several string problems in the Congested Clique model. In the Congested Clique model, $n$ nodes (computers) are used to solve some problem. The input to the problem is distributed among the nodes, and…
It is shown that the problem of computing the Strahler number of a binary tree given as a term is complete for the circuit complexity class uniform $\mathsf{NC}^1$. For several variants, where the binary tree is given by a pointer structure…
Consider two random strings having the same length and generated by an iid sequence taking its values uniformly in a fixed finite alphabet. Artificially place a long constant block into one of the strings, where a constant block is a…
We show how to build several data structures of central importance to string processing, taking as input the Burrows-Wheeler transform (BWT) and using small extra working space. Let $n$ be the text length and $\sigma$ be the alphabet size.…
We consider the communication complexity of the Hamming distance of two strings. Bille et al. [SPIRE 2018] considered the communication complexity of the longest common prefix (LCP) problem in the setting where the two parties have their…
The Longest Common Subsequence (LCS) is the problem of finding a subsequence among a set of strings that has two properties of being common to all and is the longest. The LCS has applications in computational biology and text editing, among…
The structure of an evolving network contains information about its past. Extracting this information efficiently, however, is, in general, a difficult challenge. We formulate a fast and efficient method to estimate the most likely history…
Every encoding has priori information if the encoding represents any semantic information of the unverse or object. Encoding means mapping from the unverse to the string or strings of digits. The semantic here is used in the model-theoretic…
A subspace code is a nonempty collection of subspaces of the vector space $\mathbb{F}_q^{n}$. A pair of linear codes is called a linear complementary pair (in short LCP) of codes if their intersection is trivial and the sum of their…
The longest common subsequence (LCS) problem is a central problem in stringology that finds the longest common subsequence of given two strings $A$ and $B$. More recently, a set of four constrained LCS problems (called generalized…
Multicopy search structures such as log-structured merge (LSM) trees are optimized for high insert/update/delete (collectively known as upsert) performance. In such data structures, an upsert on key $k$, which adds $(k,v)$ where $v$ can be…
This paper shows that a simple algorithm produces the {\em all-prefixes-LCSs-graph} in $O(mn)$ time for two input sequences of size $m$ and $n$. Given any prefix $p$ of the first input sequence and any prefix $q$ of the second input…
We study the complexity of the problem of searching for a set of patterns that separate two given sets of strings. This problem has applications in a wide variety of areas, most notably in data mining, computational biology, and in…
Recently, Cenzato et al.\ proposed a new text index, called the \emph{suffixient array}, which is a subset of the suffix array and supports locating a single pattern occurrence or finding its maximal exact matches (MEMs), assuming random…
The {\em longest common subsequence (LCS)} problem is a classic and well-studied problem in computer science. Palindrome is a word which reads the same forward as it does backward. The {\em longest common palindromic subsequence (LCPS)}…
Recently Kubica et al. (Inf. Process. Let., 2013) and Kim et al. (submitted to Theor. Comp. Sci.) introduced order-preserving pattern matching. In this problem we are looking for consecutive substrings of the text that have the same "shape"…