Related papers: Matching Patterns with Variables Under Edit Distan…
A regular expression specifies a set of strings formed by single characters combined with concatenation, union, and Kleene star operators. Given a regular expression $R$ and a string $Q$, the regular expression matching problem is to decide…
Feature selection is an important problem in high-dimensional data analysis and classification. Conventional feature selection approaches focus on detecting the features based on a redundancy criterion using learning and feature searching…
We study two fundamental problems in communication, Document Exchange (DE) and Error Correcting Code (ECC). In the first problem, two parties hold two strings, and one party tries to learn the other party's string through communication. In…
Haskell is a popular choice for hosting deeply embedded languages. A recurring challenge for these embeddings is how to seamlessly integrate user defined algebraic data types. In particular, one important, convenient, and expressive feature…
In this paper we address the problem of matching patterns in the so-called verification setting in which a novel, query pattern is verified against a single training pattern: the decision sought is whether the two match (i.e. belong to the…
Given $n$ length-$\ell$ strings $S =\{s_1, ..., s_n\}$ over a constant size alphabet $\Sigma$ together with parameters $d$ and $k$, the objective in the {\em Consensus String with Outliers} problem is to find a subset $S^*$ of $S$ of size…
We study regular expression membership testing: Given a regular expression of size $m$ and a string of size $n$, decide whether the string is in the language described by the regular expression. Its classic $O(nm)$ algorithm is one of the…
Unbalanced translocations are among the most frequent chromosomal alterations, accounted for 30\% of all losses of heterozygosity, a major genetic event causing inactivation of tumor suppressor genes. Despite of their central role in…
In CPM 2017, Amir et al. introduce a problem, named \emph{approximate string cover} (\textbf{ACP}), motivated by many aplications including coding and automata theory, formal language theory, combinatorics and molecular biology. A…
We systematically investigate the complexity of model checking the existential positive fragment of first-order logic. In particular, for a set of existential positive sentences, we consider model checking where the sentence is restricted…
A word $w=w_1w_2\cdots w_n$ is alternating if either $w_1<w_2>w_3<w_4>\cdots$ (when the word is up-down) or $w_1>w_2<w_3>w_4<\cdots$ (when the word is down-up). The study of alternating words avoiding classical permutation patterns was…
Several measures exist for string similarity, including notable ones like the edit distance and the indel distance. The former measures the count of insertions, deletions, and substitutions required to transform one string into another,…
The most fundamental problem considered in algorithms for text processing is pattern matching: given a pattern $p$ of length $m$ and a text $t$ of length $n$, does $p$ occur in $t$? Multiple versions of this basic question have been…
String consensus problems aim at finding a string that minimizes some given distance with respect to an input set of strings. In particular, in the Closest string problem, we are given a set of strings of equal length and a radius $d$. The…
In this paper, we study a series of algorithmic problems related to the subsequences occurring in the strings of a given language, under the assumption that this language is succinctly represented by a grammar generating it, or an automaton…
We study the complexity of the decision problem known as Permutation Pattern Matching, or PPM. The input of PPM consists of a pair of permutations $\tau$ (the `text') and $\pi$ (the `pattern'), and the goal is to decide whether $\tau$…
A covering code is a set of codewords with the property that the union of balls, suitably defined, around these codewords covers an entire space. Generally, the goal is to find the covering code with the minimum size codebook. While most…
Term pattern matching is the problem of finding all pattern matches in a subject term, given a set of patterns. Finding efficient algorithms for this problem is an important direction for research [19]. We present a new set automaton…
In this paper we consider stable matchings subject to assignment constraints. These are matchings that require certain assigned pairs to be included, insist that some other assigned pairs are not, and, importantly, are stable. Our main…
Various grammar compression algorithms have been proposed in the last decade. A grammar compression is a restricted CFG deriving the string deterministically. An efficient grammar compression develops a smaller CFG by finding duplicated…