3D anatomical shape atlas construction using mesh quality preserved deformable models

3D anatomical shape atlas construction has been extensively studied in medical image analysis research, owing to its importance in model-based image segmentation, longitudinal studies and populational statistical analysis, etc. Among multiple steps of 3D shape atlas construction, establishing anatomical correspondences across subjects, i.e., surface registration, is probably the most critical but challenging one. Adaptive focus deformable model (AFDM) [1] was proposed to tackle this problem by exploiting cross-scale geometry characteristics of 3D anatomy surfaces. Although the effectiveness of AFDM has been proved in various studies, its performance is highly dependent on the quality of 3D surface meshes, which often degrades along with the iterations of deformable surface registration (the process of correspondence matching). In this paper, we propose a new framework for 3D anatomical shape atlas construction. Our method aims to robustly establish correspondences across different subjects and simultaneously generate high-quality surface meshes without removing shape details. Mathematically, a new energy term is embedded into the original energy function of AFDM to preserve surface mesh qualities during deformable surface matching. More specifically, we employ the Laplacian representation to encode shape details and smoothness constraints. An expectation–maximization style algorithm is designed to optimize multiple energy terms alternatively until convergence. We demonstrate the performance of our method via a set of diverse applications, including a population of sparse cardiac MRI slices with 2D labels, 3D high resolution CT cardiac images and rodent brain MRIs with multiple structures. The constructed shape atlases exhibit good mesh qualities and preserve fine shape details. The constructed shape atlases can further benefit other research topics such as segmentation and statistical analysis.     

Non-lambertian reflectance modeling and shape recovery of faces using tensor splines

Modeling illumination effects and pose variations of a face is of fundamental importance in the field of facial image analysis. Most of the conventional techniques that simultaneously address both of these problems work with the Lambertian assumption and thus fall short of accurately capturing the complex intensity variation that the facial images exhibit or recovering their 3D shape in the presence of specularities and cast shadows. In this paper, we present a novel Tensor-Spline-based framework for facial image analysis. We show that, using this framework, the facial apparent BRDF field can be accurately estimated while seamlessly accounting for cast shadows and specularities. Further, using local neighborhood information, the same framework can be exploited to recover the 3D shape of the face (to handle pose variation). We quantitatively validate the accuracy of the Tensor Spline model using a more general model based on the mixture of single-lobed spherical functions. We demonstrate the effectiveness of our technique by presenting extensive experimental results for face relighting, 3D shape recovery, and face recognition using the Extended Yale B and CMU PIE benchmark data sets.     

2D and 3D shape retrieval using skeleton filling rate

As an increasing number of digital images are generated, a demand for an efficient and effective image retrieval mechanisms grows. In this work, we present a new skeleton-based algorithm for 2D and 3D shape retrieval. The algorithm starts by drawing circles (spheres for 3D) of increasing radius around skeletons. Since each skeleton corresponds to the center of a maximally inscribed circle (sphere), this process results in circles (spheres) that are partially inside the shape. Computing the ratio between pixels that lie within the shape and the total number of pixels allows us to distinguish shapes with similar skeletons. Experimental evaluation of the proposed approach including a comprehensive comparison with the previous techniques demonstrates both effectiveness and robustness of our algorithm for shape retrieval using several 2D and 3D datasets.     

Geodesic distance-weighted shape vector image diffusion

This paper presents a novel and efficient surface matching and visualization framework through the geodesic distance-weighted shape vector image diffusion. Based on conformal geometry, our approach can uniquely map a 3D surface to a canonical rectangular domain and encode the shape characteristics (e.g., mean curvatures and conformal factors) of the surface in the 2D domain to construct a geodesic distance-weighted shape vector image, where the distances between sampling pixels are not uniform but the actual geodesic distances on the manifold. Through the novel geodesic distance-weighted shape vector image diffusion presented in this paper, we can create a multiscale diffusion space, in which the cross-scale extrema can be detected as the robust geometric features for the matching and registration of surfaces. Therefore, statistical analysis and visualization of surface properties across subjects become readily available. The experiments on scanned surface models show that our method is very robust for feature extraction and surface matching even under noise and resolution change. We have also applied the framework on the real 3D human neocortical surfaces, and demonstrated the excellent performance of our approach in statistical analysis and integrated visualization of the multimodality volumetric data over the shape vector image.     

Fast character modeling with sketch-based PDE surfaces

Virtual characters are 3D geometric models of characters. They have a lot of applications in multimedia. In this paper, we propose a new physics-based deformation method and efficient character modelling framework for creation of detailed 3D virtual character models. Our proposed physics-based deformation method uses PDE surfaces. Here PDE is the abbreviation of Partial Differential Equation, and PDE surfaces are defined as sculpting force-driven shape representations of interpolation surfaces. Interpolation surfaces are obtained by interpolating key cross-section profile curves and the sculpting force-driven shape representation uses an analytical solution to a vector-valued partial differential equation involving sculpting forces to quickly obtain deformed shapes. Our proposed character modelling framework consists of global modeling and local modeling. The global modeling is also called model building, which is a process of creating a whole character model quickly with sketch-guided and template-based modeling techniques. The local modeling produces local details efficiently to improve the realism of the created character model with four shape manipulation techniques. The sketch-guided global modeling generates a character model from three different levels of sketched profile curves called primary, secondary and key cross-section curves in three orthographic views. The template-based global modeling obtains a new character model by deforming a template model to match the three different levels of profile curves. Four shape manipulation techniques for local modeling are investigated and integrated into the new modelling framework. They include: partial differential equation-based shape manipulation, generalized elliptic curve-driven shape manipulation, sketch assisted shape manipulation, and template-based shape manipulation. These new local modeling techniques have both global and local shape control functions and are efficient in local shape manipulation. The final character models are represented with a collection of surfaces, which are modeled with two types of geometric entities: generalized elliptic curves (GECs) and partial differential equation-based surfaces. Our experiments indicate that the proposed modeling approach can build detailed and realistic character models easily and quickly.

     

Shape analysis of local facial patches for 3D facial expression recognition

In this paper we address the problem of 3D facial expression recognition. We propose a local geometric shape analysis of facial surfaces coupled with machine learning techniques for expression classification. A computation of the length of the geodesic path between corresponding patches, using a Riemannian framework, in a shape space provides a quantitative information about their similarities. These measures are then used as inputs to several classification methods. The experimental results demonstrate the effectiveness of the proposed approach. Using multiboosting and support vector machines (SVM) classifiers, we achieved 98.81% and 97.75% recognition average rates, respectively, for recognition of the six prototypical facial expressions on BU-3DFE database. A comparative study using the same experimental setting shows that the suggested approach outperforms previous work.     

Unsupervised learning of an atlas from unlabeled point-sets

One of the key challenges in deformable shape modeling is the problem of estimating a meaningful average or mean shape from a set of unlabeled shapes. We present a new joint clustering and matching algorithm that is capable of computing such a mean shape from multiple shape samples which are represented by unlabeled point-sets. An iterative bootstrap process is used wherein multiple shape sample point-sets are nonrigidly deformed to the emerging mean shape, with subsequent estimation of the mean shape based on these nonrigid alignments. The process is entirely symmetric with no bias toward any of the original shape sample point-sets. We believe that this method can be especially useful for creating atlases of various shapes present in medical images. We have applied the method to create mean shapes from nine hand-segmented 2D corpus callosum data sets and 10 hippocampal 3D point-sets.     

Improved,feature-centric EMD for 3D surface modeling and processing

Since late 1990s, Empirical Mode Decomposition (EMD) starts to emerge as a powerful tool for processing non-linear and non-stationary signals. Nonetheless, the research on exploring EMD-relevant techniques in the domain of geometric modeling and processing is extremely rare. Directly applying EMD to coordinate functions of 3D shape geometry will not take advantage of the attractive EMD properties. To ameliorate, in this paper we articulate a novel 3D surface modeling and processing framework founded upon improved, feature-centric EMD, with a goal of realizing the full potential of EMD. Our strategy starts with a measure of mean curvature as a surface signal for EMD. Our newly-formulated measure of mean curvature is computed via the inner product of Laplacian vector and vertex normal. Such measure is both rotation-invariant and translation-invariant, facilitates the computation of different scale features for original surfaces, and avoids boundary shrinkage when processing open surfaces. Moreover, we modify the original EMD formulation by devising a feature-preserving multiscale decomposition algorithm for surface analysis and synthesis. The key idea is to explicitly formulate details as oscillation between local minima and maxima. Within our novel framework, we could accommodate many modeling and processing operations, such as filter design, detail transfer, and feature-preserving smoothing and denoising. Comprehensive experiments and quantitative evaluations/comparisons on popular models have demonstrated that our new surface processing methodology and algorithm based on the improved, feature-centric EMD are of great value in digital geometry processing, analysis, and synthesis.     

Data‐Driven Sparse Priors of 3D Shapes

We present a sparse optimization framework for extracting sparse shape priors from a collection of 3D models. Shape priors are defined as point‐set neighborhoods sampled from shape surfaces which convey important information encompassing normals and local shape characterization. A 3D shape model can be considered to be formed with a set of 3D local shape priors, while most of them are likely to have similar geometry. Our key observation is that the local priors extracted from a family of 3D shapes lie in a very low‐dimensional manifold. Consequently, a compact and informative subset of priors can be learned to efficiently encode all shapes of the same family. A comprehensive library of local shape priors is first built with the given collection of 3D models of the same family. We then formulate a global, sparse optimization problem which enforces selecting representative priors while minimizing the reconstruction error. To solve the optimization problem, we design an efficient solver based on the Augmented Lagrangian Multipliers method (ALM). Extensive experiments exhibit the power of our data‐driven sparse priors in elegantly solving several high‐level shape analysis applications and geometry processing tasks, such as shape retrieval, style analysis and symmetry detection.     

Globally optimal surface mapping for surfaces with arbitrary topology

Computing smooth and optimal one-to-one maps between surfaces of same topology is a fundamental problem in computer graphics and such a method provides us a ubiquitous tool for geometric modeling and data visualization. Its vast variety of applications includes shape registration/matching, shape blending, material/data transfer, data fusion, information reuse, etc. The mapping quality is typically measured in terms of angular distortions among different shapes. This paper proposes and develops a novel quasi-conformal surface mapping framework to globally minimize the stretching energy inevitably introduced between two different shapes. The existing state-of-the-art inter-surface mapping techniques only afford local optimization either on surface patches via boundary cutting or on the simplified base domain, lacking rigorous mathematical foundation and analysis. We design and articulate an automatic variational algorithm that can reach the global distortion minimum for surface mapping between shapes of arbitrary topology, and our algorithm is sorely founded upon the intrinsic geometry structure of surfaces. To our best knowledge, this is the first attempt towards numerically computing globally optimal maps. Consequently, our mapping framework offers a powerful computational tool for graphics and visualization tasks such as data and texture transfer, shape morphing, and shape matching.     

Signature Detection and Matching for Document Image Retrieval

As one of the most pervasive methods of individual identification and document authentication, signatures present convincing evidence and provide an important form of indexing for effective document image processing and retrieval in a broad range of applications. However, detection and segmentation of free-form objects such as signatures from clustered background is currently an open document analysis problem. In this paper, we focus on two fundamental problems in signature-based document image retrieval. First, we propose a novel multiscale approach to jointly detecting and segmenting signatures from document images. Rather than focusing on local features that typically have large variations, our approach captures the structural saliency using a signature production model and computes the dynamic curvature of 2D contour fragments over multiple scales. This detection framework is general and computationally tractable. Second, we treat the problem of signature retrieval in the unconstrained setting of translation, scale, and rotation invariant nonrigid shape matching. We propose two novel measures of shape dissimilarity based on anisotropic scaling and registration residual error and present a supervised learning framework for combining complementary shape information from different dissimilarity metrics using LDA. We quantitatively study state-of-the-art shape representations, shape matching algorithms, measures of dissimilarity, and the use of multiple instances as query in document image retrieval. We further demonstrate our matching techniques in offline signature verification. Extensive experiments using large real-world collections of English and Arabic machine-printed and handwritten documents demonstrate the excellent performance of our approaches.     

Effects of Errors in the Viewing Geometry on Shape Estimation

A sequence of images acquired by a moving sensor contains information about the three-dimensional motion of the sensor and the shape of the imaged scene. Interesting research during the past few years has attempted to characterize the errors that arise in computing 3D motion (egomotion estimation) as well as the errors that result in the estimation of the scene's structure (structure from motion). Previous research is characterized by the use of optic flow or correspondence of features in the analysis as well as by the employment of particular algorithms and models of the scene in recovering expressions for the resulting errors. This paper presents a geometric framework that characterizes the relationship between 3D motion and shape in the presence of errors. We examine how the three-dimensional space recovered by a moving monocular observer, whose 3D motion is estimated with some error, is distorted. We characterize the space of distortions by its level sets, that is, we characterize the systematic distortion via a family of iso-distortion surfaces, which describes the locus over which the depths of points in the scene in view are distorted by the same multiplicative factor. The framework introduced in this way has a number of applications: Since the visible surfaces have positive depth (visibility constraint), by analyzing the geometry of the regions where the distortion factor is negative, that is, where the visibility constraint is violated, we make explicit situations which are likely to give rise to ambiguities in motion estimation, independent of the algorithm used. We provide a uniqueness analysis for 3D motion analysis from normal flow. We study the constraints on egomotion, object motion, and depth for an independently moving object to be detectable by a moving observer, and we offer a quantitative account of the precision needed in an inertial sensor for accurate estimation of 3D motion.     

Variational Curve Skeletons Using Gradient Vector Flow

Representing a 3D shape by a set of 1D curves that are locally symmetric with respect to its boundary (i.e., curve skeletons) is of importance in several machine intelligence tasks. This paper presents a fast, automatic, and robust variational framework for computing continuous, subvoxel accurate curve skeletons from volumetric objects. A reference point inside the object is considered a point source that transmits two wave fronts of different energies. The first front (beta-front) converts the object into a graph, from which the object salient topological nodes are determined. Curve skeletons are tracked from these nodes along the cost field constructed by the second front (alpha-front) until the point source is reached. The accuracy and robustness of the proposed work are validated against competing techniques as well as a database of 3D objects. Unlike other state-of-the-art techniques, the proposed framework is highly robust because it avoids locating and classifying skeletal junction nodes, employs a new energy that does not form medial surfaces, and finally extracts curve skeletons that correspond to the most prominent parts of the shape and hence are less sensitive to noise.     

Labeling of medicines and patient safety: evaluating methods of reducing drug name confusion

OBJECTIVE: We report three experiments evaluating the proposal that highlighting sections of drug names using uppercase ("tall man") lettering and/or color may reduce the confusability of similar drug names. BACKGROUND: Medication errors commonly involve drug names that look or sound alike. One potential method of reducing these errors is to highlight sections of names on labels in order to emphasize the differences between similar products. METHOD: In Experiments 1 and 2, participants were timed as they decided whether similar name pairs were the same name or two different names. Experiment 3 was a recognition memory task. RESULTS: Results from Experiments 1 and 2 showed that highlighting sections of words using tall man lettering can make similar names easier to distinguish if participants are aware that this is the purpose of the intervention. Results from Experiment 3 suggested that tall man lettering and/or color does not make names less confusable in memory but that tall man letters may increase attention. CONCLUSION: These findings offer some support for the use of tall man letters in order to reduce errors caused by confusion between drug products with look-alike names. APPLICATION: The use of tall man letters could be applied in a variety of visual presentations of drug names--for example, by manufacturers on packaging, labeling, and computer software, and in pharmacies on shelf labels. Additionally, this paper demonstrates two meaningful behavioral measures that can be used during product design to objectively assess confusability of packaging and labeling.     

A general framework for analysis and comparison of surface mesh optimization techniques

Many different algorithms for surface mesh optimization (including smoothing, remeshing, simplification and subdivision), each giving different results, have recently been proposed. All these approaches affect vertices of the mesh. Vertex coordinates are modified, new vertices are added and some original ones are removed, with the result that the shape of the original surface is changed. The important question is how to evaluate the differences in shape between the input and output models. In this paper, we present a novel and versatile framework for analysis of various mesh optimization algorithms in terms of shape preservation. We depart from the usual strategy by measuring the changes in the approximated smooth surfaces rather than in the corresponding meshes. The proposed framework consists of two error metrics: normal-based and physically based. We demonstrate that our metrics allow more subtle changes in shape to be captured than is possible with some commonly used measures. As an example, the proposed tool is used to compare three different techniques, reflecting basic ideas on how to solve the surface mesh improvement problem.     

An interactive local flattening operator to support digital investigations on artwork surfaces

Analyzing either high-frequency shape detail or any other 2D fields (scalar or vector) embedded over a 3D geometry is a complex task, since detaching the detail from the overall shape can be tricky. An alternative approach is to move to the 2D space, resolving shape reasoning to easier image processing techniques. In this paper we propose a novel framework for the analysis of 2D information distributed over 3D geometry, based on a locally smooth parametrization technique that allows us to treat local 3D data in terms of image content. The proposed approach has been implemented as a sketch-based system that allows to design with a few gestures a set of (possibly overlapping) parameterizations of rectangular portions of the surface. We demonstrate that, due to the locality of the parametrization, the distortion is under an acceptable threshold, while discontinuities can be avoided since the parametrized geometry is always homeomorphic to a disk. We show the effectiveness of the proposed technique to solve specific Cultural Heritage (CH) tasks: the analysis of chisel marks over the surface of a unfinished sculpture and the local comparison of multiple photographs mapped over the surface of an artwork. For this very difficult task, we believe that our framework and the corresponding tool are the first steps toward a computer-based shape reasoning system, able to support CH scholars with a medium they are more used to.     

Image-based rendering of intersecting surfaces for dynamic comparative visualization

Nested or intersecting surfaces are proven techniques for visualizing shape differences between static 3D objects (Weigle and Taylor II, IEEE Visualization, Proceedings, pp. 503–510, 2005). In this paper we present an image-based formulation for these techniques that extends their use to dynamic scenarios, in which surfaces can be manipulated or even deformed interactively. The formulation is based on our new layered rendering pipeline, a generic image-based approach for rendering nested surfaces based on depth peeling and deferred shading.