A survey on tree matching and XML retrieval

International audienceWith the increasing number of available XML documents, numerous approaches for retrieval have been proposed in the literature. They usually use the tree representation of documents and queries to process them, whether in an implicit or explicit way. Although retrieving XML documents can be considered as a tree matching problem between the query tree and the document trees, only a few approaches take advantage of the algorithms and methods proposed by the graph theory. In this paper, we aim at studying the theoretical approaches proposed in the literature for tree matching and at seeing how these approaches have been adapted to XML querying and retrieval, from both an exact and an approximate matching perspective. This study will allow us to highlight theoretical aspects of graph theory that have not been yet explored in XML retrieval

Multiple graph matching and applications

En aplicaciones de reconocimiento de patrones, los grafos con atributos son en gran medida apropiados. Normalmente, los vértices de los grafos representan partes locales de los objetos i las aristas relaciones entre estas partes locales. No obstante, estas ventajas vienen juntas con un severo inconveniente, la distancia entre dos grafos no puede ser calculada en un tiempo polinómico. Considerando estas características especiales el uso de los prototipos de grafos es necesariamente omnipresente. Las aplicaciones de los prototipos de grafos son extensas, siendo las más habituales clustering, clasificación, reconocimiento de objetos, caracterización de objetos i bases de datos de grafos entre otras. A pesar de la diversidad de aplicaciones de los prototipos de grafos, el objetivo del mismo es equivalente en todas ellas, la representación de un conjunto de grafos. Para construir un prototipo de un grafo todos los elementos del conjunto de enteramiento tienen que ser etiquetados comúnmente. Este etiquetado común consiste en identificar que nodos de que grafos representan el mismo tipo de información en el conjunto de entrenamiento. Una vez este etiquetaje común esta hecho, los atributos locales pueden ser combinados i el prototipo construido. Hasta ahora los algoritmos del estado del arte para calcular este etiquetaje común mancan de efectividad o bases teóricas. En esta tesis, describimos formalmente el problema del etiquetaje global i mostramos una taxonomía de los tipos de algoritmos existentes. Además, proponemos seis nuevos algoritmos para calcular soluciones aproximadas al problema del etiquetaje común. La eficiencia de los algoritmos propuestos es evaluada en diversas bases de datos reales i sintéticas. En la mayoría de experimentos realizados los algoritmos propuestos dan mejores resultados que los existentes en el estado del arte.In pattern recognition, the use of graphs is, to a great extend, appropriate and advantageous. Usually, vertices of the graph represent local parts of an object while edges represent relations between these local parts. However, its advantages come together with a sever drawback, the distance between two graph cannot be optimally computed in polynomial time. Taking into account this special characteristic the use of graph prototypes becomes ubiquitous. The applicability of graphs prototypes is extensive, being the most common applications clustering, classification, object characterization and graph databases to name some. However, the objective of a graph prototype is equivalent to all applications, the representation of a set of graph. To synthesize a prototype all elements of the set must be mutually labeled. This mutual labeling consists in identifying which nodes of which graphs represent the same information in the training set. Once this mutual labeling is done the set can be characterized and combined to create a graph prototype. We call this initial labeling a common labeling. Up to now, all state of the art algorithms to compute a common labeling lack on either performance or theoretical basis. In this thesis, we formally describe the common labeling problem and we give a clear taxonomy of the types of algorithms. Six new algorithms that rely on different techniques are described to compute a suboptimal solution to the common labeling problem. The performance of the proposed algorithms is evaluated using an artificial and several real datasets. In addition, the algorithms have been evaluated on several real applications. These applications include graph databases and group-wise image registration. In most of the tests and applications evaluated the presented algorithms have showed a great improvement in comparison to state of the art applications

Un algorithme Hongrois pour l'appariement de graphes avec correction d'erreurs

International audienceBipartite graph matching algorithms become more and more popular to solve error-correcting graph matching problems and to approximate the graph edit distance of two graphs. However, the memory requirements and execution times of this method are respectively proportional to (n + m) 2 and (n + m) 3 where n and m are the order of the graphs. Subsequent developments reduced these complexities. However , these improvements are valid only under some constraints on the parameters of the graph edit distance. We propose in this paper a new formulation of the bipartite graph matching algorithm designed to solve efficiently the associated graph edit distance problem. The resulting algorithm requires O(nm) memory space and O(min(n, m) 2 max(n, m)) execution times.L'appariement de graphes biparti deviennent de plus en plus populaires pour résoudre des problèmes d'appariement de graphes avec correction d'erreurs et pour approximer la distance d'édition sur graphes. Cependant, les exigences en mémoire et temps de calcul de cette méthode sont respectivement proportionnels à (n + m)^2 et (n + m)^3 où n et m représentent la taille des deux graphes. Des développements ultérieurs ont réduit ces complexités. Cependant, ces améliorations ne sont valables que sous certaines contraintes sur les paramètres de la distance d'édition. Nous proposons dans cet article une nouvelle formulation de l'algorithme Hongrois conçu pour résoudre efficacement le problème de distance d'édition associé. L'algorithme résultat nécessite un espace mémoire O (nm) et des temps d'exécution O (min (n, m)^2 max (n, m))

Discovering Shape Classes using Tree Edit-Distance and Pairwise Clustering

This paper describes work aimed at the unsupervised learning of shape-classes from shock trees. We commence by considering how to compute the edit distance between weighted trees. We show how to transform the tree edit distance problem into a series of maximum weight clique problems, and show how to use relaxation labeling to find an approximate solution. This allows us to compute a set of pairwise distances between graph-structures. We show how the edit distances can be used to compute a matrix of pairwise affinities using χ² statistics. We present a maximum likelihood method for clustering the graphs by iteratively updating the elements of the affinity matrix. This involves interleaved steps for updating the affinity matrix using an eigendecomposition method and updating the cluster membership indicators. We illustrate the new tree clustering framework on shock-graphs extracted from the silhouettes of 2D shapes

Graph edit distance from spectral seriation

This paper is concerned with computing graph edit distance. One of the criticisms that can be leveled at existing methods for computing graph edit distance is that they lack some of the formality and rigor of the computation of string edit distance. Hence, our aim is to convert graphs to string sequences so that string matching techniques can be used. To do this, we use a graph spectral seriation method to convert the adjacency matrix into a string or sequence order. We show how the serial ordering can be established using the leading eigenvector of the graph adjacency matrix. We pose the problem of graph-matching as a maximum a posteriori probability (MAP) alignment of the seriation sequences for pairs of graphs. This treatment leads to an expression in which the edit cost is the negative logarithm of the a posteriori sequence alignment probability. We compute the edit distance by finding the sequence of string edit operations which minimizes the cost of the path traversing the edit lattice. The edit costs are determined by the components of the leading eigenvectors of the adjacency matrix and by the edge densities of the graphs being matched. We demonstrate the utility of the edit distance on a number of graph clustering problems

Matching hierarchical structures for shape recognition

In this thesis we aim to develop a framework for clustering trees and rep- resenting and learning a generative model of graph structures from a set of training samples. The approach is applied to the problem of the recognition and classification of shape abstracted in terms of its morphological skeleton. We make five contributions. The first is an algorithm to approximate tree edit-distance using relaxation labeling. The second is the introduction of the tree union, a representation capable of representing the modes of structural variation present in a set of trees. The third is an information theoretic approach to learning a generative model of tree structures from a training set. While the skeletal abstraction of shape was chosen mainly as a exper- imental vehicle, we, nonetheless, make some contributions to the fields of skeleton extraction and its graph representation. In particular, our fourth contribution is the development of a skeletonization method that corrects curvature effects in the Hamilton-Jacobi framework, improving its localiza- tion and noise sensitivity. Finally, we propose a shape-measure capable of characterizing shapes abstracted in terms of their skeleton. This measure has a number of interesting properties. In particular, it varies smoothly as the shape is deformed and can be easily computed using the presented skeleton extraction algorithm. Each chapter presents an experimental analysis of the proposed approaches applied to shape recognition problems

Approximating the problem, not the solution: An alternative view of point set matching

This work discusses the issue of approximation in point set matching. In general, one may have two classes of approximations when tackling a matching problem: (1) an algorithmic approximation which consists in using suboptimal procedures to infer the assignment, and (2), a representational approximation which involves a simplified and suboptimal model for the original data. Matching techniques have typically relied on the first approach by retaining the complete model and using suboptimal techniques to solve it. In this paper, we show how a technique based on using exact inference in simple Graphical Models, an instance of the second class, can significantly outperform instances of techniques from the first class. We experimentally compare this method with well-known Spectral and Relaxation methods, which are exemplars of the first class. We have performed experiments with synthetic and real-world data sets which reveal significant performance improvement in a wide operating range

EmbAssi: Embedding Assignment Costs for Similarity Search in Large Graph Databases

The graph edit distance is an intuitive measure to quantify the dissimilarity of graphs, but its computation is NP-hard and challenging in practice. We introduce methods for answering nearest neighbor and range queries regarding this distance efficiently for large databases with up to millions of graphs. We build on the filter-verification paradigm, where lower and upper bounds are used to reduce the number of exact computations of the graph edit distance. Highly effective bounds for this involve solving a linear assignment problem for each graph in the database, which is prohibitive in massive datasets. Index-based approaches typically provide only weak bounds leading to high computational costs verification. In this work, we derive novel lower bounds for efficient filtering from restricted assignment problems, where the cost function is a tree metric. This special case allows embedding the costs of optimal assignments isometrically into $\ell_1$ space, rendering efficient indexing possible. We propose several lower bounds of the graph edit distance obtained from tree metrics reflecting the edit costs, which are combined for effective filtering. Our method termed EmbAssi can be integrated into existing filter-verification pipelines as a fast and effective pre-filtering step. Empirically we show that for many real-world graphs our lower bounds are already close to the exact graph edit distance, while our index construction and search scales to very large databases