Related papers: On Searching Zimin Patterns
The problem of finding \emph{distance} between \emph{pattern} of length $m$ and \emph{text} of length $n$ is a typical way of generalizing pattern matching to incorporate dissimilarity score. For both Hamming and $L_1$ distances only a…
Enumeration problems related to words avoiding patterns as well as permutations that contain the pattern $123$ exactly once have been studied in great detail. However, the problem of enumerating words that contain the pattern $123$ exactly…
The $k$-mismatch problem consists in computing the Hamming distance between a pattern $P$ of length $m$ and every length-$m$ substring of a text $T$ of length $n$, if this distance is no more than $k$. In many real-world applications, any…
We introduce the stack-sorting map $\text{SC}_\sigma$ that sorts, in a right-greedy manner, an input permutation through a stack that avoids some vincular pattern $\sigma$. The stack-sorting maps of Cerbai et al. in which the stack avoids a…
Packing several characters into one computer word is a simple and natural way to compress the representation of a string and to speed up its processing. Exploiting this idea, we propose an index for a packed string, based on a {\em sparse…
Given a pattern $P$ and a text $T$, both strings over a binary alphabet, the binary jumbled string matching problem consists in telling whether any permutation of $P$ occurs in $T$. The indexed version of this problem, i.e., preprocessing a…
We consider the enumeration of ordered set partitions avoiding a permutation pattern, as introduced by Godbole, Goyt, Herdan and Pudwell. Let $\op_{n,k}(p)$ be the number of ordered set partitions of $\{1,2,\ldots,n\}$ into $k$ blocks that…
We introduce a variation of the Ziv-Lempel and Crochemore factorizations of words by requiring each factor to be a palindrome. We compute these factorizations for the Fibonacci word, and more generally, for all $m$-bonacci words.
A border u of a word w is a proper factor of w occurring both as a prefix and as a suffix. The maximal unbordered factor of w is the longest factor of w which does not have a border. Here an O(n log n)-time with high probability (or O(n log…
A sign pattern matrix is a matrix whose entries are from the set $\{+,-,0\}$. If $A$ is an $m\times n$ sign pattern matrix, the qualitative class of $A$, denoted $Q(A)$, is the set of all real $m\times n$ matrices $B=[b_{i,j}]$ with…
It is known that binary words containing no $k$ consecutive 1s are enumerated by $k$-step Fibonacci numbers. In this note we discuss the expected value of a random bit in a random word of length $n$ having this property.
We study the maximum multiplicity $\mathcal{M}(k,n)$ of a simple transposition $s_k=(k \: k+1)$ in a reduced word for the longest permutation $w_0=n \: n-1 \: \cdots \: 2 \: 1$, a problem closely related to much previous work on sorting…
Motifs are the most repetitive/frequent patterns of a time-series. The discovery of motifs is crucial for practitioners in order to understand and interpret the phenomena occurring in sequential data. Currently, motifs are searched among…
We study the distribution and the popularity of some patterns in $k$-ary faro words, i.e. words over the alphabet $\{1, 2, \ldots, k\}$ obtained by interlacing the letters of two nondecreasing words of lengths differing by at most one. We…
We study pattern matching problems on two major representations of uncertain sequences used in molecular biology: weighted sequences (also known as position weight matrices, PWM) and profiles (i.e., scoring matrices). In the simple version,…
We propose a novel approach to learn word embeddings based on an extended version of the distributional hypothesis. Our model derives word embedding vectors using the etymological composition of words, rather than the context in which they…
A finite word $f$ is Hamming-isometric if for any two word $u$ and $v$ of same length avoiding $f$, $u$ can be transformed into $v$ by changing one by one all the letters on which $u$ differs from $v$, in such a way that all of the new…
We introduce a novel definition of approximate palindromes in strings, and provide an algorithm to find all maximal approximate palindromes in a string with up to $k$ errors. Our definition is based on the usual edit operations of…
A set X of partial words over a finite alphabet A is called unavoidable if every two-sided infinite word over A has a factor compatible with an element of X. Unlike the case of a set of words without holes, the problem of deciding whether…
In this document we achieve exact and asymptotic enumeration of words, compositions over a finite group, and/or integer compositions characterized by local restrictions and, separately, subsequence pattern avoidance. We also count…