Nuclei/Cell Detection in Microscopic Skeletal Muscle Fiber Images and Histopathological Brain Tumor Images Using Sparse Optimizations

Nuclei/Cell detection is usually a prerequisite procedure in many computer-aided biomedical image analysis tasks. In this thesis we propose two automatic nuclei/cell detection frameworks. One is for nuclei detection in skeletal muscle fiber images and the other is for brain tumor histopathological images. For skeletal muscle fiber images, the major challenges include: i) shape and size variations of the nuclei, ii) overlapping nuclear clumps, and iii) a series of z-stack images with out-of-focus regions. We propose a novel automatic detection algorithm consisting of the following components: 1) The original z-stack images are first converted into one all-in-focus image. 2) A sufficient number of hypothetical ellipses are then generated for each nuclei contour. 3) Next, a set of representative training samples and discriminative features are selected by a two-stage sparse model. 4) A classifier is trained using the refined training data. 5) Final nuclei detection is obtained by mean-shift clustering based on inner distance. The proposed method was tested on a set of images containing over 1500 nuclei. The results outperform the current state-of-the-art approaches. For brain tumor histopathological images, the major challenges are to handle significant variations in cell appearance and to split touching cells. The proposed novel automatic cell detection consists of: 1) Sparse reconstruction for splitting touching cells. 2) Adaptive dictionary learning for handling cell appearance variations. The proposed method was extensively tested on a data set with over 2000 cells. The result outperforms other state-of-the-art algorithms with F1 score = 0.96

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

A shape descriptor based on trainable COSFIRE filters for the recognition of handwritten digits

The recognition of handwritten digits is an application which has been used as a benchmark for comparing shape recognition methods. We train COSFIRE filters to be selective for different parts of handwritten digits. In analogy with the neurophysiological concept of population coding we use the responses of multiple COSFIRE filters as a shape descriptor of a handwritten digit. We demonstrate the effectiveness of the proposed approach on two data sets of handwritten digits: Western Arabic (MNIST) and Farsi for which we achieve high recognition rates of 99.52% and 99.33%, respectively. COSFIRE filters are conceptually simple, easy to implement and they are versatile trainable feature detectors. The shape descriptor that we propose is highly effective to the automatic recognition of handwritten digits.peer-reviewe

Local, Semi-Local and Global Models for Texture, Object and Scene Recognition

This dissertation addresses the problems of recognizing textures, objects, and scenes in photographs. We present approaches to these recognition tasks that combine salient local image features with spatial relations and effective discriminative learning techniques. First, we introduce a bag of features image model for recognizing textured surfaces under a wide range of transformations, including viewpoint changes and non-rigid deformations. We present results of a large-scale comparative evaluation indicating that bags of features can be effective not only for texture, but also for object categization, even in the presence of substantial clutter and intra-class variation. We also show how to augment the purely local image representation with statistical co-occurrence relations between pairs of nearby features, and develop a learning and classification framework for the task of classifying individual features in a multi-texture image. Next, we present a more structured alternative to bags of features for object recognition, namely, an image representation based on semi-local parts, or groups of features characterized by stable appearance and geometric layout. Semi-local parts are automatically learned from small sets of unsegmented, cluttered images. Finally, we present a global method for recognizing scene categories that works by partitioning the image into increasingly fine sub-regions and computing histograms of local features found inside each sub-region. The resulting spatial pyramid representation demonstrates significantly improved performance on challenging scene categorization tasks

Grounding semantics in robots for Visual Question Answering

In this thesis I describe an operational implementation of an object detection and description system that incorporates in an end-to-end Visual Question Answering system and evaluated it on two visual question answering datasets for compositional language and elementary visual reasoning

Coronal loop detection from solar images and extraction of salient contour groups from cluttered images.

This dissertation addresses two different problems: 1) coronal loop detection from solar images: and 2) salient contour group extraction from cluttered images. In the first part, we propose two different solutions to the coronal loop detection problem. The first solution is a block-based coronal loop mining method that detects coronal loops from solar images by dividing the solar image into fixed sized blocks, labeling the blocks as Loop or Non-Loop , extracting features from the labeled blocks, and finally training classifiers to generate learning models that can classify new image blocks. The block-based approach achieves 64% accuracy in IO-fold cross validation experiments. To improve the accuracy and scalability, we propose a contour-based coronal loop detection method that extracts contours from cluttered regions, then labels the contours as Loop and Non-Loop , and extracts geometric features from the labeled contours. The contour-based approach achieves 85% accuracy in IO-fold cross validation experiments, which is a 20% increase compared to the block-based approach. In the second part, we propose a method to extract semi-elliptical open curves from cluttered regions. Our method consists of the following steps: obtaining individual smooth contours along with their saliency measures; then starting from the most salient contour, searching for possible grouping options for each contour; and continuing the grouping until an optimum solution is reached. Our work involved the design and development of a complete system for coronal loop mining in solar images, which required the formulation of new Gestalt perceptual rules and a systematic methodology to select and combine them in a fully automated judicious manner using machine learning techniques that eliminate the need to manually set various weight and threshold values to define an effective cost function. After finding salient contour groups, we close the gaps within the contours in each group and perform B-spline fitting to obtain smooth curves. Our methods were successfully applied on cluttered solar images from TRACE and STEREO/SECCHI to discern coronal loops. Aerial road images were also used to demonstrate the applicability of our grouping techniques to other contour-types in other real applications

A Multiple-Objects Recognition Method Based on Region Similarity Measures: Application to Roof Extraction from Orthophotoplans

In this paper, an efficient method for automatic and accurate detection of multiple objects from images using a region similarity measure is presented. This method involves the construction of two knowledge databases: The first one contains several distinctive textures of objects to be extracted. The second one is composed with textures representing background. Both databases are provided by some examples (training set) of images from which one wants to recognize objects. The proposed procedure starts by an initialization step during which the studied image is segmented into homogeneous regions. In order to separate the objects of interest from the image background, an evaluation of the similarity between the regions of the segmented image and those of the constructed knowledge databases is then performed. The proposed approach presents several advantages in terms of applicability, suitability and simplicity. Experimental results obtained from the method applied to extract building roofs from orthophotoplans prove its robustness and performance over popular methods like K Nearest Neighbours (KNN) and Support Vector Machine (SVM)

Active occlusion-handling for appearance-based object recognition models

Struwe M. Active occlusion-handling for appearance-based object recognition models. Bielefeld: Universität Bielefeld; 2017.Despite extensive research, visual detection of objects in natural scenes is still not robustly solved. The reason for this is the large variation in appearance in which objects or classes occur. A particularly challenging variation is occlusion, which is caused by the constellation of objects in a scene. Occlusion reduces the number of visible features of an object, but also causes accidental features. Current object representations yield acceptable results during a low to medium level of occlusion, but fail for stronger occlusions. This thesis addresses single image-based object recognition during occlusion and proposes different occlusion-handling strategies. Initially, it depicts a holistic discriminative car detection framework, which several chapters use as reference system. Motivated by a label analysis of hand-annotated video traffic scenes, it then presents a car detector, taking car-car constellations into account. The following chapter illustrates a modification of the reference system to cover with more general occlusion constellations. Inspired by the fact that parts-based detection approaches are more robust against occlusion, the next chapter discusses a parts-based car detector with active occlusion-handling at the detection step. At first, this exploits a strategy using the mask of the occluding object to re-weight the score of possible car hypotheses. This is followed by the presentation of an extended version, which especially targets strongly occluded cars. Due to the fact that hand-annotated video streams do not provide pixel-level information about the object instances, this thesis presents a rendered benchmark data set to resolve this issue. The pixel-level information permits intensive evaluation of occlusion-handling strategies. An eye-tracker study also uses this rendered data set to explore how humans cope with the absence of visual object features, and which information they use to deal with occlusion

Model-driven and Data-driven Approaches for some Object Recognition Problems

Recognizing objects from images and videos has been a long standing problem in computer vision. The recent surge in the prevalence of visual cameras has given rise to two main challenges where, (i) it is important to understand different sources of object variations in more unconstrained scenarios, and (ii) rather than describing an object in isolation, efficient learning methods for modeling object-scene `contextual' relations are required to resolve visual ambiguities. This dissertation addresses some aspects of these challenges, and consists of two parts. First part of the work focuses on obtaining object descriptors that are largely preserved across certain sources of variations, by utilizing models for image formation and local image features. Given a single instance of an object, we investigate the following three problems. (i) Representing a 2D projection of a 3D non-planar shape invariant to articulations, when there are no self-occlusions. We propose an articulation invariant distance that is preserved across piece-wise affine transformations of a non-rigid object `parts', under a weak perspective imaging model, and then obtain a shape context-like descriptor to perform recognition; (ii) Understanding the space of `arbitrary' blurred images of an object, by representing an unknown blur kernel of a known maximum size using a complete set of orthonormal basis functions spanning that space, and showing that subspaces resulting from convolving a clean object and its blurred versions with these basis functions are equal under some assumptions. We then view the invariant subspaces as points on a Grassmann manifold, and use statistical tools that account for the underlying non-Euclidean nature of the space of these invariants to perform recognition across blur; (iii) Analyzing the robustness of local feature descriptors to different illumination conditions. We perform an empirical study of these descriptors for the problem of face recognition under lighting change, and show that the direction of image gradient largely preserves object properties across varying lighting conditions. The second part of the dissertation utilizes information conveyed by large quantity of data to learn contextual information shared by an object (or an entity) with its surroundings. (i) We first consider a supervised two-class problem of detecting lane markings from road video sequences, where we learn relevant feature-level contextual information through a machine learning algorithm based on boosting. We then focus on unsupervised object classification scenarios where, (ii) we perform clustering using maximum margin principles, by deriving some basic properties on the affinity of `a pair of points' belonging to the same cluster using the information conveyed by `all' points in the system, and (iii) then consider correspondence-free adaptation of statistical classifiers across domain shifting transformations, by generating meaningful `intermediate domains' that incrementally convey potential information about the domain change