Detecting deformities on objects is a typical topic in shape analysis, and has much applications such as abnormalities detection in medical imaging (e.g. growth of tumor, spread of cancer). While many algorithms are already well-established in a 2-dimensional case when the object is indeed a surface, a model that still performs well in the general n-dimensional case is still missing. It is our goal in this paper to complete this missing piece, by introducing an indicator in order to effectively distinguish between normal and abnormal deformities. The proposed framework is closely related to the classic 2-dimensional conformal geometry and quasi-conformal geometry. In this work, we model abnormal deformations by anisotropic deformations. Given any two objects of the same dimension (with landmark constraints in between), we define the Anisotropic Indicator, a locally defined real-valued function on the original object, which demonstrates the abnormalities in the deformation between them. Both global and local features about the abnormalities between the two objects can be tracked by analyzing the indicator. We tested the algorithm by detecting deformations on synthetic data and real data, and results show that our algorithm can detect deformations of different types and degrees.

The skeleton of a 2D shape is an important geometric structure in pattern analysis and computer vision. In this paper we study the skeleton of a 2D shape in a two-manifold M, based on a geodesic metric. We present a formal definition of the skeleton S(\Omega) for a shape V in M and show several properties that make S(\Omega) distinct from its Euclidean counterpart in R^2. We further prove that for a shape sequence {\Omega_i} that converge to a shape V in M, the mapping \Omega\rightarrow S(\Omega_i) is lower semi-continuous. A direct application of this result is that we can use a set P of sample points to approximate the boundary of a 2D shape V in M, and the Voronoi diagram of P inside \Omega\subset M gives a good approximation to the skeleton S(\Omega). Examples of skeleton computation in topography and brain morphometry are illustrated.

We address the problem of surface inpainting, which aims to fill in holes or missing regions on a Riemann surface based on its surface geometry. In practical situation, surfaces obtained from range scanners often have holes where the 3D models are incomplete. In order to analyze the 3D shapes effectively, restoring the incomplete shape by filling in the surface holes is necessary. In this paper, we propose a novel conformal approach to inpaint surface holes on a Riemann surface based on its surface geometry. The basic idea is to represent the Riemann surface using its conformal factor and mean curvature. According to Riemann surface theory, a Riemann surface can be uniquely determined by its conformal factor and mean curvature up to a rigid motion. Given a Riemann surface S, its mean curvature H and conformal factor λ can be computed easily through its conformal parameterization. Conversely, given λ and H, a Riemann surface can be uniquely reconstructed by solving the Gauss-Codazzi equation on the conformal parameter domain. Hence, the conformal factor and the mean curvature are two geometric quantities fully describing the surface. With this λ-H representation of the surface, the problem of surface inpainting can be reduced to the problem of image inpainting of λ and H on the conformal parameter domain. Once λ and H are inpainted, a Riemann surface can be reconstructed which effectively restores the 3D surface with missing holes. Since the inpainting model is based on the geometric quantities λ and H, the restored surface follows the surface geometric pattern. We test the proposed algorithm on synthetic data as well as real surface data. Experimental results show that our proposed method is an effective surface inpainting algorithm to fill in surface holes on an incomplete 3D models based their surface geometry.

Structured light system using a digital video projector is increasingly used for a 3-D shape measurement because of its digital nature. However, the nonlinear gamma of the projector causes the projected fringe patterns to be non-sinusoidal, which results in phase error therefore shape measurement error. Previous work showed that, by using a small look-up-table (LUT), this type of phase error can be reduced significantly for a three-step phase-shifting algorithm. In this research, we prove that this type of phase error compensation method is not limited to a three-step phase-shifting algorithm. It is generic for any phase-shifting algorithm. The phase error compensation algorithm is able to theoretically eliminate the phase error caused by the gamma of the projector completely. It is based on our finding that in phase domain, the phase error due to the projector's gamma is preserved for arbitrary object's surface

We develop a new algorithm to automatically register hippocampal (HP) surfaces with complete geometric matching, avoiding the need to manually label landmark features. A good registration depends on a reasonable choice of shape energy that measures the dissimilarity between surfaces. In our work, we first propose a complete shape index using the Beltrami coefficient and curvatures, which measures subtle local differences. The proposed shape energy is zero if and only if two shapes are identical up to a rigid motion. We then seek the best surface registration by minimizing the shape energy. We propose a simple representation of surface diffeomorphisms using Beltrami coefficients, which simplifies the optimization process. We then iteratively minimize the shape energy using the proposed Beltrami Holomorphic flow (BHF) method. Experimental results on 212 HP of normal and diseased (Alzheimer's disease) subjects show our proposed algorithm is effective in registering HP surfaces with complete geometric matching. The proposed shape energy can also capture local shape differences between HP for disease analysis.

Computing geodesic distances on triangle meshes is a fundamental problem in computational geometry and computer graphics. To date, two notable classes of algorithms, the Mitchell-Mount-Papadimitriou (MMP) algorithm and the Chen-Han (CH) algorithm, have been proposed. Although these algorithms can compute exact geodesic distances if numerical computation is exact, they are computationally expensive, which diminishes their usefulness for large-scale models and/or time-critical applications. In this paper, we propose the fast wavefront propagation (FWP) framework for improving the performance of both the MMP and CH algorithms. Unlike the original algorithms that propagate only a single window (a data structure locally encodes geodesic information) at each iteration, our method organizes windows with a bucket data structure so that it can process a large number of windows simultaneously without compromising wavefront quality. Thanks to its macro nature, the FWP method is less sensitive to mesh triangulation than the MMP and CH algorithms. We evaluate our FWP-based MMP and CH algorithms on a wide range of large-scale real-world models. Computational results show that our method can improve the speed by a factor of 3-10.

A fresh framework for mesh optimization, the Filtered Hooke's Optimization, is proposed. With the notion of the elasticity theory, the Hooke's Optimization is developed by modifying the Hooke's law, in which an elastic force is simulated on the edges of a mesh so that adjacent vertices are either attracted to each other or repelled from each other, so as to regularize the mesh in terms of triangulation. A normal torque force is acted on vertices to guarantee smoothness of the surface. In addition, a filtering scheme, called the Newtonian Filtering, is proposed as a supplementary tool for the proposed Hooke's Optimization to preserve the geometry of the mesh. Numerical simulations on meshes with different geometry indicate an impressive performance of our proposed framework to significantly improve the mesh triangulation without noteworthy distortions of the mesh geometry.

This work proposes a novel framework for optimization in the constrained diffeomorphism space for deformable surface registration. First the diffeomorphism space is modeled as a special complex functional space on the source surface, the Beltrami coefficient space. The physically plausible constraints, in terms of feature landmarks and deformation types, define subspaces in the Beltrami coefficient space. Then the harmonic energy of the registration is minimized in the constrained subspaces. The minimization is achieved by alternating two steps: 1) optimization - diffuse the Beltrami coefficient, and 2) projection - first deform the conformal structure by the current Beltrami coefficient and then compose with a harmonic map from the deformed conformal structure to the target. The registration result is diffeomorphic, satisfies the physical landmark and deformation constraints, and minimizes the conformality distortion. Experiments on human facial surfaces demonstrate the efficiency and efficacy of the proposed registration framework.

Presented in this paper is a sweepline algorithm to compute the Voronoi diagram of a set of circles in a two-dimensional Euclidean space. The radii of the circles are non-negative and not necessarily equal. It is allowed that circles intersect each other, and a circle contains others. The proposed algorithm constructs the correct Voronoi diagram as a sweepline moves on the plane from top to bottom. While moving on the plane, the sweepline stops only at certain event points where the topology changes occur for the Voronoi diagram being constructed. The worst-case time complexity of the proposed algorithm is $O((n+m)log n)$, where $n$ is the number of input circles, and $m$ is the number of intersection points among circles. As $m$ can be $O(n^22)$, the presented algorithm is optimal with $O(n^2 log n) $ worst-case time complexity.

We develop a general approach that uses holomorphic 1-forms to parameterize anatomical surfaces with complex (possibly branching) topology. Rather than evolve the surface geometry to a plane or sphere, we instead use the fact that all orientable surfaces are Riemann surfaces and admit conformal structures, which induce special curvilinear coordinate systems on the surfaces. Based on Riemann surface structure, we can then canonically partition the surface into patches. Each of these patches can be conformally mapped to a parallelogram. The resulting surface subdivision and the parameterizations of the components are intrinsic and stable. To illustrate the technique, we computed conformal structures for several types of anatomical surfaces in MRI scans of the brain, including the cortex, hippocampus, and lateral ventricles. We found that the resulting parameterizations were consistent across

We propose a method to map a multiply connected bounded planar region conformally to a bounded region with circular boundaries. The norm of the derivative of such a conformal map satisfies the Laplace equation with a nonlinear Neumann type boundary condition. We analyze the singular behavior at corners of the boundary and separate the major singular part. The remaining smooth part solves a variational problem which is easy to discretize. We use a finite element method and a gradient descent method to find an approximate solution. The conformal map is then constructed from this norm function. We tested our algorithm on a polygonal region and a curvilinear smooth region.

Computing centroidal Voronoi tessellations (CVT) has many applications in computer graphics. The existing methods, such as the Lloyd algorithm and the quasi-Newton solver, are efficient and easy to implement; however, they compute only the local optimal solutions due to the highly non-linear nature of the CVT energy. This paper presents a novel method, called manifold differential evolution (MDE), for computing globally optimal geodesic CVT energy on triangle meshes. Formulating the mutation operator using discrete geodesics, MDE naturally extends the powerful differential evolution framework from Euclidean spaces to manifold domains. Under mild assumptions, we show that MDE has a provable probabilistic convergence to the global optimum. Experiments on a wide range of 3D models show that MDE consistently outperforms the existing methods by producing results with lower energy. Thanks to its intrinsic and global nature, MDE is insensitive to initialization and mesh tessellation. Moreover, it is able to handle multiply-connected Voronoi cells, which are challenging to the existing geodesic CVT methods.

This paper proposes a novel approach for extracting two intrinsic feature curves on hippocampal (HC) surfaces. The hippocampus is a key target of study in medical imaging, as it degenerates in conditions such as epilepsy and Alzheimer's disease (AD), but its structure is complex. To facilitate HC morphometry, we generate two intrinsic feature curves that describe their global geometries. For example, the separation of them captures thickness changes in HC surfaces, which can be used to effectively measure HC atrophy found in patients with AD. They also separate HC surfaces into upper and lower surface patches where intrinsic shape analysis using conformal modules can be carried out. Based on these curves, we further propose a parameterization of HC surfaces called the eigen-harmonic parameterization (EHP). EHP maps each HC surface onto a parameter domain and imposes longitudinal and azimuthal coordinates on each surface, which follow the gradient and level sets of its first nontrivial Laplace-Beltrami eigenfunction, respectively. Each tubular domain is constructed according to the geometry of an individual HC surface. This gives a parameter domain with much less geometric distortion compared to spherical parameterization. With EHP, all HC surfaces are automatically registered with intrinsic feature curves preserved and geometric distortions minimized. This allows shape analysis on any number of HC surfaces to be performed consistently. We studied geometric changes over time in 138 HC surfaces of patients with AD and normal subjects scanned at two different times. We successfully located areas with significantly different shape changes over time between the two groups.

This paper describes a high-resolution, real-time, three-dimensional shape measurement system using the modified two-plus-one phase-shifting algorithm. The data acquisition speed is as high as 60 frames/s with an image resolution of 640480 pixels per frame. Experiments demonstrated that the system was able to acquire the dynamic changing objects such as facial geometric shape changes when the subject is speaking, and the modified two-plus-one phase-shifting algorithm can further alleviate the error due to motion. Applications of this system include manufacturing, online inspection, medical imaging, compute vision, and computer graphics.

Adolescent Idiopathic Scoliosis (AIS) characterized by the 3D spine deformity affects about 4% schoolchildren worldwide. Several studies have demonstrated the malfunctioning of postural balance, proprioception, and equilibrium control in patients with AIS. Since these functions are closely related to structures in and around the brainstem, the morphometry of the brainstem surface is of utmost importance. In this paper, we propose an effective method to accurately compute the registration between brainstem surfaces. Four consistent features, which describe the global geometry of the brainstem, are automatically extracted to guide the surface registration. Using the discrete Ricci flow method, brainstem surfaces are parameterized conformally onto the quadrilaterally-faced hexahedron, through which the brainstem registration can be obtained. Our registration algorithm can guarantee the exact landmark correspondence between brainstem surfaces. With the obtained registration, a shape energy can be defined to measure the local shape difference between different brainstem surfaces. We have tested our algorithms on 30 real brainstem surfaces extracted from MRIs of 15 normal subjects and 15 AIS patients. Experimental results show the efficacy of the proposed algorithm to register brainstem surfaces, which matches landmark features consistently. The computed registration can be used for the morphometry of brainstems.

This paper describes a Graphics Processing Unit (GPU)-assisted real-time three-dimensional shape measurement system. Our experiments demonstrated that the absolute coordinates calculation and rendering speed of a GPU is more than four times faster than that of a dual CPU workstation with the same graphics card. By implementing the GPU into our system, we realized simultaneous absolute coordinate acquisition, reconstruction and display at 30 frames per second with a resolution of approximately 266K points per frame. Moreover, a 2+1 phase-shifting algorithm was employed to alleviate the measurement error caused by motion. Applications of the system include medical imaging, manufacturing, entertainment, and security.

Surface parameterizations have been widely used in computer graphics and geometry processing. In particular, as simply-connected open surfaces are conformally equivalent to the unit disk, it is desirable to compute the disk conformal parameterizations of the surfaces. In this paper, we propose a novel algorithm for the conformal parameterization of a simply-connected open surface onto the unit disk, which significantly speeds up the computation, enhances the conformality and stability, and guarantees the bijectivity. The conformality distortions at the inner region and on the boundary are corrected by two steps, with the aid of an iterative scheme using quasi-conformal theories. Experimental results demonstrate the effectiveness of our proposed method.

We study the combinatorial complexity of Voronoi diagram of point sites on a general triangulated 2-manifold surface, based on the geodesic metric. Given a triangulated 2- manifold T of n faces and a set of m point sites S = {s1, s2, . . . , sm} ∈ T, we prove that the complexity of Voronoi diagram VT (S) of S on T is O(mn) if the genus of T is zero. For a genus-g manifold T in which the samples in S are dense enough and the resulting Voronoi diagram satisfies the closed ball property, we prove that the complexity of Voronoi diagram VT (S) is O((m + g)n).

This paper proposes a novel algorithm to extract feature landmarks on the vestibular system (VS), for the analysis of Adolescent Idiopathic Scoliosis (AIS) disease. AIS is a 3-D spinal deformity commonly occurred in adolescent girls with unclear etiology. One popular hypothesis was suggested to be the structural changes in the VS that induce the disturbed balance perception, and further cause the spinal deformity. The morphometry of VS to study the geometric differences between the healthy and AIS groups is of utmost importance. However, the VS is a genus-3 structure situated in the inner ear. The high-genus topology of the surface poses great challenge for shape analysis. In this work, we present a new method to compute exact geodesic loops on the VS. The resultant geodesic loops are in Euclidean metric, thus characterizing the intrinsic geometric properties of the VS based on the real background geometry. This leads to more accurate results than existing methods, such as the hyperbolic Ricci flow method. Furthermore, our method is fully automatic and highly efficient, e.g., one order of magnitude faster than. We applied our algorithm to the VS of normal and AIS subjects. The promising experimental results demonstrate the efficacy of our method and reveal more statistically significant shape difference in the VS between right-thoracic AIS and normal subjects.

In this paper, we investigate how to topologically and geometrically characterize the intersection relations between a movable convex polygon and a set  of possibly overlapping polygons fixed in the plane. More specifically, a subset   is called an intersection relation if there exists a placement of that intersects, and only intersects, . The objective of this paper is to design an efficient algorithm that finds a finite and discrete representation of all of the intersection relations between and . Past related research only focuses on the complexity of the free space of the configuration space between and  and how to move or place an object in this free space. However, there are many applications that require the knowledge of not only the free space, but also the intersection relations. Examples are presented to demonstrate the rich applications of the formulated problem on intersection relations.

Point cloud is the most fundamental representation of 3D geometric objects as it provides the most exact information of them. Analyzing and processing point cloud surfaces is important in computer graphics and computer vision. However, most of the existing algorithms for surface analysis require connectivity information. Therefore, it is desirable to develop a mesh structure on point clouds. This task can be simplified with the aid of a parameterization. In particular, conformal parameterizations are advantageous in preserving the geometric information of the point cloud data. In this paper, we extend a state-of-the-art spherical conformal parameterization algorithm for genus-0 closed meshes to the case of point clouds, using an improved approximation of the Laplace-Beltrami operator on data points. Then, we propose an iterative scheme called the North-South reiteration for achieving a spherical conformal parameterization. A balancing scheme is introduced to enhance the distribution of the spherical parameterization. High quality triangulations and quadrangulations can then be built on the point clouds with the aid of the parameterizations. Also, the meshes generated are guaranteed to be genus-0 closed meshes. Moreover, using our proposed spherical conformal parameterization, multilevel representations of point clouds can be easily constructed. Experimental results demonstrate the effectiveness of our proposed framework.

Delaunay meshes (DM) are a special type of manifold triangle meshes --- where the local Delaunay condition holds everywhere --- and find important applications in digital geometry processing. This paper addresses the \yongjin{general} DM simplification problem: given an arbitrary manifold triangle mesh M with n vertices and the user-specified resolution m(< n), compute a Delaunay mesh M* with m vertices that has the least Hausdorff distance to M. To solve the problem, we abstract the simplification process using a 2D Cartesian grid model, in which each grid point corresponds to triangle meshes with a certain number of vertices and a simplification process is a monotonic path on the grid. We develop a novel differential-evolution-based method to compute a low-cost path, which leads to a high quality Delaunay mesh. Extensive evaluation shows that our method consistently outperforms the existing methods in terms of approximation error. In particular, our method is highly effective for small-scale CAD models and man-made objects with sharp features but less details. Moreover, our method is fully automatic and can preserve sharp features well and deal with models with multiple components, whereas the existing methods often fail.

There is an unmet medical need to identify neuroimaging biomarkers that allow us to accurately diagnose and monitor Alzheimer's disease (AD) at its very early stages and to assess the response to AD-modifying therapies. To a certain extent, volumetric and functional magnetic resonance imaging (fMRI) studies can detect changes in structure, cerebral blood flow, and blood oxygenation that distinguish AD and mild cognitive impairment (MCI) subjects from healthy control (HC) subjects. However, it has been challenging to use fully automated MRI analytic methods to identify potential AD neuroimaging biomarkers. We have thus proposed a method based on independent component analysis (ICA) for studying potential AD-related MR image features that can be coupled with the use of support vector machine (SVM) for classifying scans into categories of AD, MCI, and HC subjects. The MRI data were selected from

Here we propose a novel method to compute Teichmller shape space based shape index to study brain morphometry. Such a shape index is intrinsic, and invariant under conformal transformations, rigid motions and scaling. We conformally map a genus-zero open boundary surface to the Poincar disk with the Yamabe flow method. The shape indices that we compute are the lengths of a special set of geodesics under hyperbolic metric. Tests on longitudinal brain imaging data were used to demonstrate the stability of the derived feature vectors. In leave-one-out validation tests, we achieved 100% accurate classification (versus only 68% accuracy for volume measures) in distinguishing 11 HIV/AIDS individuals from 8 healthy control subjects, based on Teichmller coordinates for lateral ventricular surfaces extracted from their 3D MRI scans.

In this paper we show that stability for holomorphic vector bundles are equivalent to the existence of solutions to certain system of Monge Ampere equations parametrized by a parameter k. We solve this fully nonlinear elliptic system by singular perturbation technique and show that the vanishing of obstructions for the perturbation is given precisely by the stability condition. This can be interpreted as an infinite dimensional analog of the equivalencybetween Geometric Invariant Theory and Symplectic Reduction for moduli space of vector bundles.