3D Object Comparison Based on Shape Descriptors

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Graph matching using position coordinates and local features for image analysis

Encontrar las correspondencias entre dos imágenes es un problema crucial en el campo de la visión por ordenador i el reconocimiento de patrones. Es relevante para un amplio rango de propósitos des de aplicaciones de reconocimiento de objetos en las áreas de biometría, análisis de documentos i análisis de formas hasta aplicaciones relacionadas con la geometría desde múltiples puntos de vista tales cómo la recuperación de la pose, estructura desde el movimiento y localización y mapeo. La mayoría de las técnicas existentes enfocan este problema o bien usando características locales en la imagen o bien usando métodos de registro de conjuntos de puntos (o bien una mezcla de ambos). En las primeras, un conjunto disperso de características es primeramente extraído de las imágenes y luego caracterizado en la forma de vectores descriptores usando evidencias locales de la imagen. Las características son asociadas según la similitud entre sus descriptores. En las segundas, los conjuntos de características son considerados cómo conjuntos de puntos los cuales son asociados usando técnicas de optimización no lineal. Estos son procedimientos iterativos que estiman los parámetros de correspondencia y de alineamiento en pasos alternados. Los grafos son representaciones que contemplan relaciones binarias entre las características. Tener en cuenta relaciones binarias al problema de la correspondencia a menudo lleva al llamado problema del emparejamiento de grafos. Existe cierta cantidad de métodos en la literatura destinados a encontrar soluciones aproximadas a diferentes instancias del problema de emparejamiento de grafos, que en la mayoría de casos es del tipo "NP-hard". El cuerpo de trabajo principal de esta tesis está dedicado a formular ambos problemas de asociación de características de imagen y registro de conjunto de puntos como instancias del problema de emparejamiento de grafos. En todos los casos proponemos algoritmos aproximados para solucionar estos problemas y nos comparamos con un número de métodos existentes pertenecientes a diferentes áreas como eliminadores de "outliers", métodos de registro de conjuntos de puntos y otros métodos de emparejamiento de grafos. Los experimentos muestran que en la mayoría de casos los métodos propuestos superan al resto. En ocasiones los métodos propuestos o bien comparten el mejor rendimiento con algún método competidor o bien obtienen resultados ligeramente peores. En estos casos, los métodos propuestos normalmente presentan tiempos computacionales inferiores.Trobar les correspondències entre dues imatges és un problema crucial en el camp de la visió per ordinador i el reconeixement de patrons. És rellevant per un ampli ventall de propòsits des d’aplicacions de reconeixement d’objectes en les àrees de biometria, anàlisi de documents i anàlisi de formes fins aplicacions relacionades amb geometria des de múltiples punts de vista tals com recuperació de pose, estructura des del moviment i localització i mapeig. La majoria de les tècniques existents enfoquen aquest problema o bé usant característiques locals a la imatge o bé usant mètodes de registre de conjunts de punts (o bé una mescla d’ambdós). En les primeres, un conjunt dispers de característiques és primerament extret de les imatges i després caracteritzat en la forma de vectors descriptors usant evidències locals de la imatge. Les característiques son associades segons la similitud entre els seus descriptors. En les segones, els conjunts de característiques son considerats com conjunts de punts els quals son associats usant tècniques d’optimització no lineal. Aquests son procediments iteratius que estimen els paràmetres de correspondència i d’alineament en passos alternats. Els grafs son representacions que contemplen relacions binaries entre les característiques. Tenir en compte relacions binàries al problema de la correspondència sovint porta a l’anomenat problema de l’emparellament de grafs. Existeix certa quantitat de mètodes a la literatura destinats a trobar solucions aproximades a diferents instàncies del problema d’emparellament de grafs, el qual en la majoria de casos és del tipus “NP-hard”. Una part del nostre treball està dedicat a investigar els beneficis de les mesures de ``bins'' creuats per a la comparació de característiques locals de les imatges. La resta està dedicat a formular ambdós problemes d’associació de característiques d’imatge i registre de conjunt de punts com a instàncies del problema d’emparellament de grafs. En tots els casos proposem algoritmes aproximats per solucionar aquests problemes i ens comparem amb un nombre de mètodes existents pertanyents a diferents àrees com eliminadors d’“outliers”, mètodes de registre de conjunts de punts i altres mètodes d’emparellament de grafs. Els experiments mostren que en la majoria de casos els mètodes proposats superen a la resta. En ocasions els mètodes proposats o bé comparteixen el millor rendiment amb algun mètode competidor o bé obtenen resultats lleugerament pitjors. En aquests casos, els mètodes proposats normalment presenten temps computacionals inferiors

FEAT-REP : representing features in CAD/CAM

When CAD/CAM experts view a workpiece, they perceive it in terms of their own expertise. These terms, called features, which are build upon a syntax (geometry) and a semantic (e.g. skeletal plans in manufacturing or functional relations in design), provide an abstraction mechanism to facilitate the creation, manufacturing and analysis of workpieces. Our goal is to enable experts to represent their own feature-language via a feature-grammar in the computer to build feature-based systems e.g. CAPP systems. The application of formal language terminology to the feature definitions facilitates the use of well-known formal language methods in conjunction with our flexible knowledge representation formalism FEAT-REP which will be presented in this paper

Determining Alpha-Helix Correspondence for Protein Structure Prediction from Cryo-EM Density Maps, Master\u27s Thesis, May 2007

Determining protein structure is an important problem for structural biologists, which has received a significant amount of attention in the recent years. In this thesis, we describe a novel, shape-modeling approach as an intermediate step towards recovering 3D protein structures from volumetric images. The input to our method is a sequence of alpha-helices that make up a protein, and a low-resolution volumetric image of the protein where possible locations of alpha-helices have been detected. Our task is to identify the correspondence between the two sets of helices, which will shed light on how the protein folds in space. The central theme of our approach is to cast the correspondence problem as that of shape matching between the 3D volume and the 1D sequence. We model both the shapes as attributed relational graphs, and formulate a constrained inexact graph matching problem. To compute the matching, we developed an optimal algorithm based on the A*-search with several choices of heuristic functions. As demonstrated in a suite of real protein data, the shape-modeling approach is capable of correctly identifying helix correspondences in noise-abundant volumes with minimal or no user intervention

Improved human soft tissue thigh surrogates for superior assessment of sports personal protective equipment

Human surrogates are representations of living humans, commonly adopted to better understand human response to impacts. Though surrogates have been widely used in automotive, defence and medical industries with varying levels of biofidelity, their primary application in the sporting goods industry has been through primitive rigid anvils used in assessing personal protective equipment (PPE) effectiveness. In sports, absence from competition is an important severity measure and soft tissue injuries such as contusions and lacerations are serious concerns. Consequently, impact surrogates for the sporting goods industry need a more subtle description of the relevant soft tissues to assess impact severity and mitigation accurately to indicate the likelihood of injury. The fundamental aim for this research study was to establish a method to enable the development of superior, complementary, increasingly complex synthetic and computational impact surrogates for improved assessment of sports personal protective equipment. With a particular focus on the thigh segment, research was conducted to evaluate incremental increases in surrogate complexity. Throughout this study, empirical assessment of synthetic surrogates and computational evaluation using finite element (FE) models were employed to further knowledge on design features influencing soft tissue surrogates in a cost and time efficient manner. To develop a more representative human impact surrogate, the tissue structures considered, geometries and materials were identified as key components influencing the mechanical response of surrogates. As a design tool, FE models were used to evaluate the changes in impact response elicited with different soft tissue layer configurations. The study showed the importance of skin, adipose, muscle and bone tissue structures and indicated up to 15.4% difference in maximum soft tissue displacement caused by failure to represent the skin layer. FE models were further used in this capacity in a shape evaluation study from which it was determined that a full-scale anatomically contoured thigh was necessary to show the full diversity of impact response phenomena exhibited. This was particularly pertinent in PPE evaluations where simple surrogate shapes significantly underestimated the magnitudes of displacements exhibited (up to 155% difference) when rigid shell PPE was simulated under impact conditions. Synthetic PDMS silicone simulants were then fabricated for each of the organic soft tissues to match their dynamic responses. The developed simulants exhibited a superior representation of the tissues when compared to previous single material soft tissue simulant, Silastic 3483, which showed 324%, 11,140% and -15.8% greater differences than the PDMS when compared to previously reported target organic tissue datasets for relaxed muscle, skin and adipose tissues respectively. The impact response of these PDMS surrogates were compared in FE models with previously used single material simulants in representative knee and cricket ball sports impact events. The models were each validated through experimental tests and the PDMS simulants were shown to exhibit significantly closer responses to organic tissue predictions across all impact conditions and evaluation metrics considered. An anatomically contoured synthetic thigh surrogate was fabricated using the PDMS soft tissue simulants through a novel multi-stage moulding process. The surrogate was experimentally tested under representative sports impact conditions and showed a good comparison with FE model predictions with a maximum difference in impactor displacements and peak accelerations of +6.86% and +12.5% respectively at velocities between 2 - 4 m.s-1. The value of increased biofidelity in the anatomical synthetic and virtual surrogate thighs has been proven through the incremental adoption of important surrogate elements (tissue structures, material and geometries). The predictive capabilities of each surrogate have been demonstrated through their parallel developments and staged comparisons with idealised organic tissue responses. This increase in biofidelity is introduced at modestly higher cost compared to Silastic 3483, but, given the benefits of a more representative human impact response for PPE evaluations, this is shown to be worthwhile

Computational Topology Methods for Shape Modelling Applications

This thesis deals with computational topology, a recent branch of research that involves both mathematics and computer science, and tackles the problem of discretizing the Morse theory to functions defined on a triangle mesh. The application context of Morse theory in general, and Reeb graphs in particular, deals with the analysis of geometric shapes and the extraction of skeletal structures that synthetically represents shape, preserving the topological properties and the main morphological characteristics. Regarding Computer Graphics, shapes, that is a one-, two- or higher- dimensional connected, compact space having a visual appearance, are typically approximated by digital models. Since topology focuses on the qualitative properties of spaces, such as the connectedness and how many and what type of holes it has, topology is the best tool to describe the shape of a mathematical model at a high level of abstraction. Geometry, conversely, is mainly related to the quantitative characteristics of a shape. Thus, the combination of topology and geometry creates a new generation of tools that provide a computational description of the most representative features of the shape along with their relationship. Extracting qualitative information, that is the information related to semantic of the shape and its morphological structure, from discrete models is a central goal in shape modeling. In this thesis a conceptual model is proposed which represents a given surface based on topological coding that defines a sketch of the surface, discarding irrelevant details and classifying its topological type. The approach is based on Morse theory and Reeb graphs, which provide a very useful shape abstraction method for the analysis and structuring of the information contained in the geometry of the discrete shape model. To fully develop the method, both theoretical and computational aspects have been considered, related to the definition and the extension of the Reeb graph to the discrete domain. For the definition and automatic construction of the conceptual model, a new method has been developed that analyzes and characterizes a triangle mesh with respect to the behavior of a real and at least continuous function defined on the mesh. The proposed solution handles also degenerate critical points, such as non-isolated critical points. To do that, the surface model is characterized using a contour-based strategy, recognizing critical areas instead of critical points and coding the evolution of the contour levels in a graph-like structure, named Extended Reeb Graph, (ERG), which is a high-level abstract model suitable for representing and manipulating piece-wise linear surfaces. The descriptive power of the (ERG) has been also augmented with the introduction of geometric information together with the topological ones, and it has been also studied the relation between the extracted topological and morphological features with respect to the real characteristics of the surface, giving and evaluation of the dimension of the discarded details. Finally, the effectiveness of our description framework has been evaluated in several application contexts

The Computational Modelling of Collecting Lymphatic Vessels

This thesis details a 1-d model of a lymphatic vessel, developed from a model by Reddy. Some additions to the modelling techniques were found to be necessary to prevent numerical phenomena not found in experiment. Furthermore the details of the wall and valve were important to the mechanics of the system. This developed model presents flow characteristics which are not represented in the existing lumped parameter or 1-d models of the lymphatic system. Additional terms allow more realistic representation of some modes of flow such as those occurring during collapse. The model was validated using Poiseuille flow calculations and experimental work. Features found in experiment were reproduced in the model. Such as the shark tooth shape of the radius time graph. A study of the sensitivity of the model to experimental parameters was performed. Features that increased flow included: increased compliance of the vessel, a larger diameter, amplitude of contraction or frequency, or a faster contraction wave. A lumped parameter model, relating the radius directly to the pressure, was investigated but this did not reproduce flow features such as the shark tooth shaped radius with time relationship or the radius peak at the beginning of a contraction or passive relaxation of the vessel. In the 1-d model the time constant of this passive relaxation increased with the magnitude of contraction. This value may have physiological relevance.EPSR

3D Shape Similarity Through Structural Descriptors

Due to the recent improvements to 3D object acquisition, visualization and modeling techniques, the number of 3D models available is more and more growing, and there is an increasing demand for tools supporting the automatic search for 3D objects and their sub-parts in digital archives. Whilst there are already techniques for rapidly extracting knowledge from massive volumes of texts (like Google [htt]) it is harder to structure, filter, organize, retrieve and maintain archives of digital shapes like images, 3D objects, 3D animations and virtual or augmented reality. This situations suggests that in the future a primary challenge in computer graphics will be how to find models having a similar global and/or local appearance. Shape descriptors and the methodologies used to compare them, occupy an important role for achieving this task. For this reason a first contribution of this thesis is to provide a critical analysis of the most representative geometric and structural shape descriptors with respect to a set of properties that shape descriptors should have. This analysis is targeted at highlighting the differences between descriptors in order to better understand where a descriptor fails and another succeed. As a second contribution, the thesis investigates the problem of using a structural descriptor for shape comparison purposes. A large class of structural shape descriptors can be easily encoded as directed, a-cyclic and attributed graphs, thus the problem of comparing structural descriptors is approached as a graph matching problem. The techniques used for graph comparison have an exponential computational complexity and it is therefore necessary to define an algorithmic approximation of the optimal solution. The methods for structural descriptors comparison, commonly used in the computer graphics community, consist of heuristic graph matching algorithms for specific application tasks, while it is lacking a general approach suitable for incorporating different heuristics applicable in different application tasks. The second contribution presented in this thesis is aimed at defining a framework for expressing the optimal algorithm for the computation of the maximal common subgraph in a formalization which makes it straightforward usable for plugging heuristics in it, in order to achieving different approximations of the optimal solution according to the specific case. Implemented heuristics for robust graph matching with respect to graph structural noise are discussed and experimented on sub-part correspondence between similar 3D objects, and shape retrieval application with respect to different structural graph descriptors