Dynamic Thermal Imaging for Intraoperative Monitoring of Neuronal Activity and Cortical Perfusion

Neurosurgery is a demanding medical discipline that requires a complex interplay of several neuroimaging techniques. This allows structural as well as functional information to be recovered and then visualized to the surgeon. In the case of tumor resections this approach allows more fine-grained differentiation of healthy and pathological tissue which positively influences the postoperative outcome as well as the patient's quality of life. In this work, we will discuss several approaches to establish thermal imaging as a novel neuroimaging technique to primarily visualize neural activity and perfusion state in case of ischaemic stroke. Both applications require novel methods for data-preprocessing, visualization, pattern recognition as well as regression analysis of intraoperative thermal imaging. Online multimodal integration of preoperative and intraoperative data is accomplished by a 2D-3D image registration and image fusion framework with an average accuracy of 2.46 mm. In navigated surgeries, the proposed framework generally provides all necessary tools to project intraoperative 2D imaging data onto preoperative 3D volumetric datasets like 3D MR or CT imaging. Additionally, a fast machine learning framework for the recognition of cortical NaCl rinsings will be discussed throughout this thesis. Hereby, the standardized quantification of tissue perfusion by means of an approximated heating model can be achieved. Classifying the parameters of these models yields a map of connected areas, for which we have shown that these areas correlate with the demarcation caused by an ischaemic stroke segmented in postoperative CT datasets. Finally, a semiparametric regression model has been developed for intraoperative neural activity monitoring of the somatosensory cortex by somatosensory evoked potentials. These results were correlated with neural activity of optical imaging. We found that thermal imaging yields comparable results, yet doesn't share the limitations of optical imaging. In this thesis we would like to emphasize that thermal imaging depicts a novel and valid tool for both intraoperative functional and structural neuroimaging

Motion-capture-based hand gesture recognition for computing and control

This dissertation focuses on the study and development of algorithms that enable the analysis and recognition of hand gestures in a motion capture environment. Central to this work is the study of unlabeled point sets in a more abstract sense. Evaluations of proposed methods focus on examining their generalization to users not encountered during system training. In an initial exploratory study, we compare various classification algorithms based upon multiple interpretations and feature transformations of point sets, including those based upon aggregate features (e.g. mean) and a pseudo-rasterization of the capture space. We find aggregate feature classifiers to be balanced across multiple users but relatively limited in maximum achievable accuracy. Certain classifiers based upon the pseudo-rasterization performed best among tested classification algorithms. We follow this study with targeted examinations of certain subproblems. For the first subproblem, we introduce the a fortiori expectation-maximization (AFEM) algorithm for computing the parameters of a distribution from which unlabeled, correlated point sets are presumed to be generated. Each unlabeled point is assumed to correspond to a target with independent probability of appearance but correlated positions. We propose replacing the expectation phase of the algorithm with a Kalman filter modified within a Bayesian framework to account for the unknown point labels which manifest as uncertain measurement matrices. We also propose a mechanism to reorder the measurements in order to improve parameter estimates. In addition, we use a state-of-the-art Markov chain Monte Carlo sampler to efficiently sample measurement matrices. In the process, we indirectly propose a constrained k-means clustering algorithm. Simulations verify the utility of AFEM against a traditional expectation-maximization algorithm in a variety of scenarios. In the second subproblem, we consider the application of positive definite kernels and the earth mover\u27s distance (END) to our work. Positive definite kernels are an important tool in machine learning that enable efficient solutions to otherwise difficult or intractable problems by implicitly linearizing the problem geometry. We develop a set-theoretic interpretation of ENID and propose earth mover\u27s intersection (EMI). a positive definite analog to ENID. We offer proof of EMD\u27s negative definiteness and provide necessary and sufficient conditions for ENID to be conditionally negative definite, including approximations that guarantee negative definiteness. In particular, we show that ENID is related to various min-like kernels. We also present a positive definite preserving transformation that can be applied to any kernel and can be used to derive positive definite EMD-based kernels, and we show that the Jaccard index is simply the result of this transformation applied to set intersection. Finally, we evaluate kernels based on EMI and the proposed transformation versus ENID in various computer vision tasks and show that END is generally inferior even with indefinite kernel techniques. Finally, we apply deep learning to our problem. We propose neural network architectures for hand posture and gesture recognition from unlabeled marker sets in a coordinate system local to the hand. As a means of ensuring data integrity, we also propose an extended Kalman filter for tracking the rigid pattern of markers on which the local coordinate system is based. We consider fixed- and variable-size architectures including convolutional and recurrent neural networks that accept unlabeled marker input. We also consider a data-driven approach to labeling markers with a neural network and a collection of Kalman filters. Experimental evaluations with posture and gesture datasets show promising results for the proposed architectures with unlabeled markers, which outperform the alternative data-driven labeling method

Learning Inference Models for Computer Vision

Computer vision can be understood as the ability to perform 'inference' on image data. Breakthroughs in computer vision technology are often marked by advances in inference techniques, as even the model design is often dictated by the complexity of inference in them. This thesis proposes learning based inference schemes and demonstrates applications in computer vision. We propose techniques for inference in both generative and discriminative computer vision models. Despite their intuitive appeal, the use of generative models in vision is hampered by the difficulty of posterior inference, which is often too complex or too slow to be practical. We propose techniques for improving inference in two widely used techniques: Markov Chain Monte Carlo (MCMC) sampling and message-passing inference. Our inference strategy is to learn separate discriminative models that assist Bayesian inference in a generative model. Experiments on a range of generative vision models show that the proposed techniques accelerate the inference process and/or converge to better solutions. A main complication in the design of discriminative models is the inclusion of prior knowledge in a principled way. For better inference in discriminative models, we propose techniques that modify the original model itself, as inference is simple evaluation of the model. We concentrate on convolutional neural network (CNN) models and propose a generalization of standard spatial convolutions, which are the basic building blocks of CNN architectures, to bilateral convolutions. First, we generalize the existing use of bilateral filters and then propose new neural network architectures with learnable bilateral filters, which we call `Bilateral Neural Networks'. We show how the bilateral filtering modules can be used for modifying existing CNN architectures for better image segmentation and propose a neural network approach for temporal information propagation in videos. Experiments demonstrate the potential of the proposed bilateral networks on a wide range of vision tasks and datasets. In summary, we propose learning based techniques for better inference in several computer vision models ranging from inverse graphics to freely parameterized neural networks. In generative vision models, our inference techniques alleviate some of the crucial hurdles in Bayesian posterior inference, paving new ways for the use of model based machine learning in vision. In discriminative CNN models, the proposed filter generalizations aid in the design of new neural network architectures that can handle sparse high-dimensional data as well as provide a way for incorporating prior knowledge into CNNs

Exploring QCD matter in extreme conditions with Machine Learning

In recent years, machine learning has emerged as a powerful computational tool and novel problem-solving perspective for physics, offering new avenues for studying strongly interacting QCD matter properties under extreme conditions. This review article aims to provide an overview of the current state of this intersection of fields, focusing on the application of machine learning to theoretical studies in high energy nuclear physics. It covers diverse aspects, including heavy ion collisions, lattice field theory, and neutron stars, and discuss how machine learning can be used to explore and facilitate the physics goals of understanding QCD matter. The review also provides a commonality overview from a methodology perspective, from data-driven perspective to physics-driven perspective. We conclude by discussing the challenges and future prospects of machine learning applications in high energy nuclear physics, also underscoring the importance of incorporating physics priors into the purely data-driven learning toolbox. This review highlights the critical role of machine learning as a valuable computational paradigm for advancing physics exploration in high energy nuclear physics.Comment: 146 pages,53 figure

Statistical Analysis of Spherical Data: Clustering, Feature Selection and Applications

In the light of interdisciplinary applications, data to be studied and analyzed have witnessed a growth in volume and change in their intrinsic structure and type. In other words, in practice the diversity of resources generating objects have imposed several challenges for decision maker to determine informative data in terms of time, model capability, scalability and knowledge discovery. Thus, it is highly desirable to be able to extract patterns of interest that support the decision of data management. Clustering, among other machine learning approaches, is an important data engineering technique that empowers the automatic discovery of similar object’s clusters and the consequent assignment of new unseen objects to appropriate clusters. In this context, the majority of current research does not completely address the true structure and nature of data for particular application at hand. In contrast to most previous research, our proposed work focuses on the modeling and classification of spherical data that are naturally generated in many data mining and knowledge discovery applications. Thus, in this thesis we propose several estimation and feature selection frameworks based on Langevin distribution which are devoted to spherical patterns in offline and online settings. In this thesis, we first formulate a unified probabilistic framework, where we build probabilistic kernels based on Fisher score and information divergences from finite Langevin mixture for Support Vector Machine. We are motivated by the fact that the blending of generative and discriminative approaches has prevailed by exploring and adopting distinct characteristic of each approach toward constructing a complementary system combining the best of both. Due to the high demand to construct compact and accurate statistical models that are automatically adjustable to dynamic changes, next in this thesis, we propose probabilistic frameworks for high-dimensional spherical data modeling based on finite Langevin mixtures that allow simultaneous clustering and feature selection in offline and online settings. To this end, we adopted finite mixture models which have long been heavily relied on deterministic learning approaches such as maximum likelihood estimation. Despite their successful utilization in wide spectrum of areas, these approaches have several drawbacks as we will discuss in this thesis. An alternative approach is the adoption of Bayesian inference that naturally addresses data uncertainty while ensuring good generalization. To address this issue, we also propose a Bayesian approach for finite Langevin mixture model estimation and selection. When data change dynamically and grow drastically, finite mixture is not always a feasible solution. In contrast with previous approaches, which suppose an unknown finite number of mixture components, we finally propose a nonparametric Bayesian approach which assumes an infinite number of components. We further enhance our model by simultaneously detecting informative features in the process of clustering. Through extensive empirical experiments, we demonstrate the merits of the proposed learning frameworks on diverse high dimensional datasets and challenging real-world applications

High-Level Facade Image Interpretation using Marked Point Processes

In this thesis, we address facade image interpretation as one essential ingredient for the generation of high-detailed, semantic meaningful, three-dimensional city-models. Given a single rectified facade image, we detect relevant facade objects such as windows, entrances, and balconies, which yield a description of the image in terms of accurate position and size of these objects. Urban digital three-dimensional reconstruction and documentation is an active area of research with several potential applications, e.g., in the area of digital mapping for navigation, urban planning, emergency management, disaster control or the entertainment industry. A detailed building model which is not just a geometric object enriched with texture, allows for semantic requests as the number of floors or the location of balconies and entrances. Facade image interpretation is one essential step in order to yield such models. In this thesis, we propose the interpretation of facade images by combining evidence for the occurrence of individual object classes which we derive from data, and prior knowledge which guides the image interpretation in its entirety. We present a three-step procedure which generates features that are suited to describe relevant objects, learns a representation that is suited for object detection, and that enables the image interpretation using the results of object detection while incorporating prior knowledge about typical configurations of facade objects, which we learn from training data. According to these three sub-tasks, our major achievements are: We propose a novel method for facade image interpretation based on a marked point process. Therefor, we develop a model for the description of typical configurations of facade objects and propose an image interpretation system which combines evidence derived from data and prior knowledge about typical configurations of facade objects. In order to generate evidence from data, we propose a feature type which we call shapelets. They are scale invariant and provide large distinctiveness for facade objects. Segments of lines, arcs, and ellipses serve as basic features for the generation of shapelets. Therefor, we propose a novel line simplification approach which approximates given pixel-chains by a sequence of lines, circular, and elliptical arcs. Among others, it is based on an adaption to Douglas-Peucker's algorithm, which is based on circles as basic geometric elements We evaluate each step separately. We show the effects of polyline segmentation and simplification on several images with comparable good or even better results, referring to a state-of-the-art algorithm, which proves their large distinctiveness for facade objects. Using shapelets we provide a reasonable classification performance on a challenging dataset, including intra-class variations, clutter, and scale changes. Finally, we show promising results for the facade interpretation system on several datasets and provide a qualitative evaluation which demonstrates the capability of complete and accurate detection of facade objectsHigh-Level Interpretation von Fassaden-Bildern unter Benutzung von Markierten PunktprozessenDas Thema dieser Arbeit ist die Interpretation von Fassadenbildern als wesentlicher Beitrag zur Erstellung hoch detaillierter, semantisch reichhaltiger dreidimensionaler Stadtmodelle. In rektifizierten Einzelaufnahmen von Fassaden detektieren wir relevante Objekte wie Fenster, Türen und Balkone, um daraus eine Bildinterpretation in Form von präzisen Positionen und Größen dieser Objekte abzuleiten. Die digitale dreidimensionale Rekonstruktion urbaner Regionen ist ein aktives Forschungsfeld mit zahlreichen Anwendungen, beispielsweise der Herstellung digitaler Kartenwerke für Navigation, Stadtplanung, Notfallmanagement, Katastrophenschutz oder die Unterhaltungsindustrie. Detaillierte Gebäudemodelle, die nicht nur als geometrische Objekte repräsentiert und durch eine geeignete Textur visuell ansprechend dargestellt werden, erlauben semantische Anfragen, wie beispielsweise nach der Anzahl der Geschosse oder der Position der Balkone oder Eingänge. Die semantische Interpretation von Fassadenbildern ist ein wesentlicher Schritt für die Erzeugung solcher Modelle. In der vorliegenden Arbeit lösen wir diese Aufgabe, indem wir aus Daten abgeleitete Evidenz für das Vorkommen einzelner Objekte mit Vorwissen kombinieren, das die Analyse der gesamten Bildinterpretation steuert. Wir präsentieren dafür ein dreistufiges Verfahren: Wir erzeugen Bildmerkmale, die für die Beschreibung der relevanten Objekte geeignet sind. Wir lernen, auf Basis abgeleiteter Merkmale, eine Repräsentation dieser Objekte. Schließlich realisieren wir die Bildinterpretation basierend auf der zuvor gelernten Repräsentation und dem Vorwissen über typische Konfigurationen von Fassadenobjekten, welches wir aus Trainingsdaten ableiten. Wir leisten dazu die folgenden wissenschaftlichen Beiträge: Wir schlagen eine neuartige Me-thode zur Interpretation von Fassadenbildern vor, die einen sogenannten markierten Punktprozess verwendet. Dafür entwickeln wir ein Modell zur Beschreibung typischer Konfigurationen von Fassadenobjekten und entwickeln ein Bildinterpretationssystem, welches aus Daten abgeleitete Evidenz und a priori Wissen über typische Fassadenkonfigurationen kombiniert. Für die Erzeugung der Evidenz stellen wir Merkmale vor, die wir Shapelets nennen und die skaleninvariant und durch eine ausgesprochene Distinktivität im Bezug auf Fassadenobjekte gekennzeichnet sind. Als Basismerkmale für die Erzeugung der Shapelets dienen Linien-, Kreis- und Ellipsensegmente. Dafür stellen wir eine neuartige Methode zur Vereinfachung von Liniensegmenten vor, die eine Pixelkette durch eine Sequenz von geraden Linienstücken und elliptischen Bogensegmenten approximiert. Diese basiert unter anderem auf einer Adaption des Douglas-Peucker Algorithmus, die anstelle gerader Linienstücke, Bogensegmente als geometrische Basiselemente verwendet. Wir evaluieren jeden dieser drei Teilschritte separat. Wir zeigen Ergebnisse der Liniensegmen-tierung anhand verschiedener Bilder und weisen dabei vergleichbare und teilweise verbesserte Ergebnisse im Vergleich zu bestehende Verfahren nach. Für die vorgeschlagenen Shapelets weisen wir in der Evaluation ihre diskriminativen Eigenschaften im Bezug auf Fassadenobjekte nach. Wir erzeugen auf einem anspruchsvollen Datensatz von skalenvariablen Fassadenobjekten, mit starker Variabilität der Erscheinung innerhalb der Klassen, vielversprechende Klassifikationsergebnisse, die die Verwendbarkeit der gelernten Shapelets für die weitere Interpretation belegen. Schließlich zeigen wir Ergebnisse der Interpretation der Fassadenstruktur anhand verschiedener Datensätze. Die qualitative Evaluation demonstriert die Fähigkeit des vorgeschlagenen Lösungsansatzes zur vollständigen und präzisen Detektion der genannten Fassadenobjekte

異なる空間を繋ぐ光輸送シミュレーション

学位の種別: 課程博士審査委員会委員 : （主査）東京大学教授 稲葉 雅幸, 東京大学教授 千葉 滋, 東京大学教授 五十嵐 健夫, 東京大学教授 松尾 宇泰, 東京大学講師 中山 英樹, 東京大学講師 蜂須賀 恵也University of Tokyo(東京大学

Deep generative models for solving geophysical inverse problems

My thesis presents several novel methods to facilitate solving large-scale inverse problems by utilizing recent advances in machine learning, and particularly deep generative modeling. Inverse problems involve reliably estimating unknown parameters of a physical model from indirect observed data that are noisy. Solving inverse problems presents primarily two challenges. The first challenge is to capture and incorporate prior knowledge into ill-posed inverse problems whose solutions cannot be uniquely identified. The second challenge is the computational complexity of solving inverse problems, particularly the cost of quantifying uncertainty. The main goal of this thesis is to address these issues by developing practical data-driven methods that are scalable to geophysical applications in which access to high-quality training data is often limited. There are six papers included in this thesis. A majority of these papers focus on addressing computational challenges associated with Bayesian inference and uncertainty quantification, while others focus on developing regularization techniques to improve inverse problem solution quality and accelerate the solution process. These papers demonstrate the applicability of the proposed methods to seismic imaging, a large-scale geophysical inverse problem with a computationally expensive forward operator for which sufficiently capturing the variability in the Earth's heterogeneous subsurface through a training dataset is challenging. The first two papers present computationally feasible methods of applying a class of methods commonly referred to as deep priors to seismic imaging and uncertainty quantification. I also present a systematic Bayesian approach to translate uncertainty in seismic imaging to uncertainty in downstream tasks performed on the image. The next two papers aim to address the reliability concerns surrounding data-driven methods for solving Bayesian inverse problems by leveraging variational inference formulations that offer the benefits of fully-learned posteriors while being directly informed by physics and data. The last two papers are concerned with correcting forward modeling errors where the first proposes an adversarially learned postprocessing step to attenuate numerical dispersion artifacts in wave-equation simulations due to coarse finite-difference discretizations, while the second trains a Fourier neural operator surrogate forward model in order to accelerate the qualification of uncertainty due to errors in the forward model parameterization.Ph.D