Related papers: Indexes for Jumbled Pattern Matching in Strings, T…
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…
In this paper we establish all extremal graphs with respect to augmented eccentric connectivity index among all (simple connected) graphs, among trees and among trees with perfect matching. For graphs that turn out to be extremal explicit…
We investigate hierarchical structure in various complex systems according to Minimum Spanning Tree methods. Firstly, we investigate stock markets where the graphis obtained from the matrix of correlations coefficient computed between all…
We discuss the question whether the existence of perfect matchings in a cubic graph can be seen from the spectrum of its adjacency matrix. For regular graphs in general and for three edge-disjoint perfect matchings in a cubic graph (that…
There now exist compact indexes that can efficiently list all the occurrences of a pattern in a dataset consisting of thousands of genomes, or even all the occurrences of all the pattern's maximal exact matches (MEMs) with respect to the…
Given two strings $T$ and $S$ and a set of strings $P$, for each string $p \in P$, consider the unique substrings of $T$ that have $p$ as their prefix and $S$ as their suffix. Two problems then come to mind; the first problem being the…
We present a space- and time-efficient fully dynamic implementation de Bruijn graphs, which can also support fixed-length jumbled pattern matching.
Tree-like tableaux are objects in bijection with alternative or permutation tableaux. They have been the subject of a fruitful combinatorial study for the past few years. In the present work, we define and study a new subclass of tree-like…
Consider observation data, comprised of n observation vectors with values on a set of attributes. This gives us n points in attribute space. Having data structured as a tree, implied by having our observations embedded in an ultrametric…
A weighted string over an alphabet of size $\sigma$ is a string in which a set of letters may occur at each position with respective occurrence probabilities. Weighted strings, also known as position weight matrices or uncertain sequences,…
We propose an extension of the join calculus with pattern matching on algebraic data types. Our initial motivation is twofold: to provide an intuitive semantics of the interaction between concurrency and pattern matching; to define a…
Given a binary string $\omega$ over the alphabet $\{0, 1\}$, a vector $(a, b)$ is a Parikh vector if and only if a factor of $\omega$ contains exactly $a$ occurrences of $0$ and $b$ occurrences of $1$. Answering whether a vector is a Parikh…
As a fundamental problem in pattern recognition, graph matching has applications in a variety of fields, from computer vision to computational biology. In graph matching, patterns are modeled as graphs and pattern recognition amounts to…
The palindromic tree (a.k.a. eertree) is a data structure that provides access to all palindromic substrings of a string. In this paper, we propose a dynamic version of eertree, called double-ended eertree, which supports online operations…
This article investigates how graph matching can be applied to process plant design data in order to support the reuse of previous designs. A literature review of existing graph matching algorithms is performed, and a group of algorithms is…
In this paper we propose an approach for computing multiple high-quality near-isometric dense correspondences between a pair of 3D shapes. Our method is fully automatic and does not rely on user-provided landmarks or descriptors. This…
String matching is the problem of finding all the substrings of a text which match a given pattern. It is one of the most investigated problems in computer science, mainly due to its very diverse applications in several fields. Recently,…
We obtain the symmetry algebra of multi-matrix models in the planar large N limit. We use this algebra to associate these matrix models with quantum spin chains. In particular, certain multi-matrix models are exactly solved by using known…
In this paper we consider alignment of sparse graphs, for which we introduce the Neighborhood Tree Matching Algorithm (NTMA). For correlated Erd\H{o}s-R\'{e}nyi random graphs, we prove that the algorithm returns -- in polynomial time -- a…
We introduce and study the {\em orderly spanning trees} of plane graphs. This algorithmic tool generalizes {\em canonical orderings}, which exist only for triconnected plane graphs. Although not every plane graph admits an orderly spanning…