A stochastic large deformation model for computational anatomy

In the study of shapes of human organs using computational anatomy, variations are found to arise from inter-subject anatomical differences, disease-specific effects, and measurement noise. This paper introduces a stochastic model for incorporating random variations into the Large Deformation Diffeomorphic Metric Mapping (LDDMM) framework. By accounting for randomness in a particular setup which is crafted to fit the geometrical properties of LDDMM, we formulate the template estimation problem for landmarks with noise and give two methods for efficiently estimating the parameters of the noise fields from a prescribed data set. One method directly approximates the time evolution of the variance of each landmark by a finite set of differential equations, and the other is based on an Expectation-Maximisation algorithm. In the second method, the evaluation of the data likelihood is achieved without registering the landmarks, by applying bridge sampling using a stochastically perturbed version of the large deformation gradient flow algorithm. The method and the estimation algorithms are experimentally validated on synthetic examples and shape data of human corpora callosa

Left atrial trajectory impairment in hypertrophic cardiomyopathy disclosed by geometric morphometrics and parallel transport

The analysis of full Left Atrium (LA) deformation and whole LA deformational trajectory in time has been poorly investigated and, to the best of our knowledge, seldom discussed in patients with Hypertrophic Cardiomyopathy. Therefore, we considered 22 patients with Hypertrophic Cardiomyopathy (HCM) and 46 healthy subjects, investigated them by three-dimensional Speckle Tracking Echocardiography, and studied the derived landmark clouds via Geometric Morphometrics with Parallel Transport. Trajectory shape and trajectory size were different in Controls versus HCM and their classification powers had high AUC (Area Under the Receiving Operator Characteristic Curve) and accuracy. The two trajectories were much different at the transition between LA conduit and booster pump functions. Full shape and deformation analyses with trajectory analysis enabled a straightforward perception of pathophysiological consequences of HCM condition on LA functioning. It might be worthwhile to apply these techniques to look for novel pathophysiological approaches that may better define atrio-ventricular interaction

ROAM: a Rich Object Appearance Model with Application to Rotoscoping

Rotoscoping, the detailed delineation of scene elements through a video shot, is a painstaking task of tremendous importance in professional post-production pipelines. While pixel-wise segmentation techniques can help for this task, professional rotoscoping tools rely on parametric curves that offer the artists a much better interactive control on the definition, editing and manipulation of the segments of interest. Sticking to this prevalent rotoscoping paradigm, we propose a novel framework to capture and track the visual aspect of an arbitrary object in a scene, given a first closed outline of this object. This model combines a collection of local foreground/background appearance models spread along the outline, a global appearance model of the enclosed object and a set of distinctive foreground landmarks. The structure of this rich appearance model allows simple initialization, efficient iterative optimization with exact minimization at each step, and on-line adaptation in videos. We demonstrate qualitatively and quantitatively the merit of this framework through comparisons with tools based on either dynamic segmentation with a closed curve or pixel-wise binary labelling

Morphable Face Models - An Open Framework

In this paper, we present a novel open-source pipeline for face registration based on Gaussian processes as well as an application to face image analysis. Non-rigid registration of faces is significant for many applications in computer vision, such as the construction of 3D Morphable face models (3DMMs). Gaussian Process Morphable Models (GPMMs) unify a variety of non-rigid deformation models with B-splines and PCA models as examples. GPMM separate problem specific requirements from the registration algorithm by incorporating domain-specific adaptions as a prior model. The novelties of this paper are the following: (i) We present a strategy and modeling technique for face registration that considers symmetry, multi-scale and spatially-varying details. The registration is applied to neutral faces and facial expressions. (ii) We release an open-source software framework for registration and model-building, demonstrated on the publicly available BU3D-FE database. The released pipeline also contains an implementation of an Analysis-by-Synthesis model adaption of 2D face images, tested on the Multi-PIE and LFW database. This enables the community to reproduce, evaluate and compare the individual steps of registration to model-building and 3D/2D model fitting. (iii) Along with the framework release, we publish a new version of the Basel Face Model (BFM-2017) with an improved age distribution and an additional facial expression model

A statistical shape model for deformable surface

This short paper presents a deformable surface registration scheme which is based on the statistical shape modelling technique. The method consists of two major processing stages, model building and model fitting. A statistical shape model is first built using a set of training data. Then the model is deformed and matched to the new data by a modified iterative closest point (ICP) registration process. The proposed method is tested on real 3-D facial data from BU-3DFE database. It is shown that proposed method can achieve a reasonable result on surface registration, and can be used for patient position monitoring in radiation therapy and potentially can be used for monitoring of the radiation therapy progress for head and neck patients by analysis of facial articulation

View-based modelling of human visual navigation errors

View-based and Cartesian representations provide rival accounts of visual navigation in humans, and here we explore possible models for the view-based case. A visual “homing” experiment was undertaken by human participants in immersive virtual reality. The distributions of end-point errors on the ground plane differed significantly in shape and extent depending on visual landmark configuration and relative goal location. A model based on simple visual cues captures important characteristics of these distributions. Augmenting visual features to include 3D elements such as stereo and motion parallax result in a set of models that describe the data accurately, demonstrating the effectiveness of a view-based approach

Gaussian Process Morphable Models

Statistical shape models (SSMs) represent a class of shapes as a normal distribution of point variations, whose parameters are estimated from example shapes. Principal component analysis (PCA) is applied to obtain a low-dimensional representation of the shape variation in terms of the leading principal components. In this paper, we propose a generalization of SSMs, called Gaussian Process Morphable Models (GPMMs). We model the shape variations with a Gaussian process, which we represent using the leading components of its Karhunen-Loeve expansion. To compute the expansion, we make use of an approximation scheme based on the Nystrom method. The resulting model can be seen as a continuous analogon of an SSM. However, while for SSMs the shape variation is restricted to the span of the example data, with GPMMs we can define the shape variation using any Gaussian process. For example, we can build shape models that correspond to classical spline models, and thus do not require any example data. Furthermore, Gaussian processes make it possible to combine different models. For example, an SSM can be extended with a spline model, to obtain a model that incorporates learned shape characteristics, but is flexible enough to explain shapes that cannot be represented by the SSM. We introduce a simple algorithm for fitting a GPMM to a surface or image. This results in a non-rigid registration approach, whose regularization properties are defined by a GPMM. We show how we can obtain different registration schemes,including methods for multi-scale, spatially-varying or hybrid registration, by constructing an appropriate GPMM. As our approach strictly separates modelling from the fitting process, this is all achieved without changes to the fitting algorithm. We show the applicability and versatility of GPMMs on a clinical use case, where the goal is the model-based segmentation of 3D forearm images