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A theory of systems with long-range correlations based on the consideration of binary N-step Markov chains is developed. In the model, the conditional probability that the i-th symbol in the chain equals zero (or unity) is a linear function…
The problem of approximate string matching is important in many different areas such as computational biology, text processing and pattern recognition. A great effort has been made to design efficient algorithms addressing several variants…
In the Shortest-Superstring problem, we are given a set of strings S and want to find a string that contains all strings in S as substrings and has minimum length. This is a classical problem in approximation and the best known…
We investigate the order of the variance of the optimal alignments score of two independent iid binary random words having the same length. The letters are equiprobable, but the scoring function is such that one letter has a larger score…
The fundamental problem of similarity studies, in the frame of data-mining, is to examine and detect similar items in articles, papers, books, with huge sizes. In this paper, we are interested in the probabilistic, and the statistical and…
Let $S_n$ be the set of all permutations of $\{1,2,\ldots,n\}$ and let $\sigma=(\sigma_1,\sigma_2,\ldots,\sigma_n)\in S_n$. The {\it initial longest increasing sequence} (ILIS) in $\sigma$ has length $m$ if, for $1\le m\le n-1$,…
We consider a component of the word statistics known as clump; starting from a finite set of words, clumps are maximal overlapping sets of these occurrences. This parameter has first been studied by Schbath with the aim of counting the…
This note examines a problem in enumerative and asymptotic combinatorics involving the classical structure of integer compositions. What is sought is an analysis on average and in distribution of the length of the longest run of consecutive…
We study the binary Ehrenfeucht Mycielski sequence seeking a balance between the number of occurrences of different binary strings. There have been numerous attempts to prove the balance conjecture of the sequence, which roughly states that…
Unlike in statistical compression, where Shannon's entropy is a definitive lower bound, no such clear measure exists for the compressibility of repetitive sequences. Since statistical entropy does not capture repetitiveness, ad-hoc measures…
Almost sure convergence rates for linear algorithms $h_{k+1} = h_k +\frac{1}{k^\chi} (b_k-A_kh_k)$ are studied, where $\chi\in(0,1)$, $\{A_{k}\}_{k=1}^\infty$ are symmetric, positive semidefinite random matrices and $\{b_{k}\}_{k=1}^\infty$…
Stochastic finite automata arise naturally in many language and speech processing tasks. They include stochastic acceptors, which represent certain probability distributions over random strings. We consider the problem of efficient…
Let $(X_n)_{n\ge 0}$ be an irreducible, aperiodic, and homogeneous binary Markov chain and let $LI_n$ be the length of the longest (weakly) increasing subsequence of $(X_k)_{1\le k \le n}$. Using combinatorial constructions and weak…
The Shortest Common Superstring (SCS) problem asks for the shortest string that contains each of a given set of strings as a substring. Its reverse-complement variant, the Shortest Common Superstring problem with Reverse Complements…
The Binary Jumbled String Matching problem is defined as: Given a string $s$ over $\{a,b\}$ of length $n$ and a query $(x,y)$, with $x,y$ non-negative integers, decide whether $s$ has a substring $t$ with exactly $x$ $a$'s and $y$ $b$'s.…
We generalise a multiple string pattern matching algorithm, recently proposed by Fredriksson and Grabowski [J. Discr. Alg. 7, 2009], to deal with arbitrary dictionaries on an alphabet of size $s$. If $r_m$ is the number of words of length…
In this paper, we study edit distance (ED) and longest common subsequence (LCS) in the asymmetric streaming model, introduced by Saks and Seshadhri [SS13]. As an intermediate model between the random access model and the streaming model,…
Labelled Markov chains (LMCs) are widely used in probabilistic verification, speech recognition, computational biology, and many other fields. Checking two LMCs for equivalence is a classical problem subject to extensive studies, while the…
Drawing on various notions from theoretical computer science, we present a novel numerical approach, motivated by the notion of algorithmic probability, to the problem of approximating the Kolmogorov-Chaitin complexity of short strings. The…
When considering binary strings, it's natural to wonder how many distinct subsequences might exist in a given string. Given that there is an existing algorithm which provides a straightforward way to compute the number of distinct…