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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…
In this paper we develop combinatorial techniques for the case of string algebras with the aim to give a characterization of string complexes with infinite minimal projective resolution. These complexes will be called \textit{periodic…
In this note, we consider the problem of finding a step-by-step transformation between two longest increasing subsequences in a sequence, namely Longest Increasing Subsequence Reconfiguration. We give a polynomial-time algorithm for…
We consider the problem of embedding the Steiner points of a Steiner tree with given topology into the rectilinear plane. Thereby, the length of the path between a distinguished terminal and each other terminal must not exceed given length…
We study optimal decision policies for integer linear programs with a fixed feasible set and varying cost vectors, represented as linear decision trees. Once synthesized for a given feasible set, they return an optimal solution for any…
Consider the nearest neighbor graph for the integer lattice Z^d in d dimensions. For a large finite piece of it, consider choosing a spanning tree for that piece uniformly among all possible subgraphs that are spanning trees. As the piece…
The present paper presents and proves a proposition concerning the time complexity of finite languages. It is shown herein, that for any finite language (a language for which the set of words composing it is finite) there is a Turing…
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…
Suppose we label the vertices of a tree by positive integers. The weight of an edge is defined by a monotonically increasing function of the absolute value of the difference of the labels of its endpoints. We define the total cost of the…
We present a new algorithm for iterating over all permutations of a sequence. The algorithm leverages elementary~$O(1)$ operations on recursive lists. As a result, no new nodes are allocated during the computation. Instead, all elements are…
Fast exact algorithms are known for Hamiltonian paths in undirected and directed bipartite graphs through elegant though involved algorithms that are quite different from each other. We devise algorithms that are simple and similar to each…
Kernel methods are powerful tools in machine learning. They have to be computationally efficient. In this paper, we present a novel Geometric-based approach to compute efficiently the string subsequence kernel (SSK). Our main idea is that…
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…
In binary jumbled pattern matching we wish to preprocess a binary string $S$ in order to answer queries $(i,j)$ which ask for a substring of $S$ that is of size $i$ and has exactly $j$ 1-bits. The problem naturally generalizes to…
In general dimension, there is no known total polynomial algorithm for either convex hull or vertex enumeration, i.e. an algorithm whose complexity depends polynomially on the input and output sizes. It is thus important to identify…
The problem of constructing optimal factoring automata arises in the context of unification factoring for the efficient execution of logic programs. Given an ordered set of $n$ strings of length $m$, the problem is to construct a trie-like…
The all-pairs suffix-prefix (APSP) problem is a classical problem in string processing which has important applications in bioinformatics. Given a set $\mathcal{S} = \{S_1, \ldots, S_k\}$ of $k$ strings, the APSP problem asks one to compute…
We consider the problem of augmenting an $n$-vertex tree with one shortcut in order to minimize the diameter of the resulting graph. The tree is embedded in an unknown space and we have access to an oracle that, when queried on a pair of…
The longest common prefix array is a very advantageous data structure that, combined with the suffix array and the Burrows-Wheeler transform, allows to efficiently compute some combinatorial properties of a string useful in several…
Inspired by artistic practices such as beadwork and himmeli, we study the problem of threading a single string through a set of tubes, so that pulling the string forms a desired graph. More precisely, given a connected graph (where edges…