Discrete-Continuous ADMM for Transductive Inference in Higher-Order MRFs

This paper introduces a novel algorithm for transductive inference in higher-order MRFs, where the unary energies are parameterized by a variable classifier. The considered task is posed as a joint optimization problem in the continuous classifier parameters and the discrete label variables. In contrast to prior approaches such as convex relaxations, we propose an advantageous decoupling of the objective function into discrete and continuous subproblems and a novel, efficient optimization method related to ADMM. This approach preserves integrality of the discrete label variables and guarantees global convergence to a critical point. We demonstrate the advantages of our approach in several experiments including video object segmentation on the DAVIS data set and interactive image segmentation

Nephroblastoma in MRI Data

The main objective of this work is the mathematical analysis of nephroblastoma in MRI sequences. At the beginning we provide two different datasets for segmentation and classification. Based on the first dataset, we analyze the current clinical practice regarding therapy planning on the basis of annotations of a single radiologist. We can show with our benchmark that this approach is not optimal and that there may be significant differences between human annotators and even radiologists. In addition, we demonstrate that the approximation of the tumor shape currently used is too coarse granular and thus prone to errors. We address this problem and develop a method for interactive segmentation that allows an intuitive and accurate annotation of the tumor. While the first part of this thesis is mainly concerned with the segmentation of Wilms’ tumors, the second part deals with the reliability of diagnosis and the planning of the course of therapy. The second data set we compiled allows us to develop a method that dramatically improves the differential diagnosis between nephroblastoma and its precursor lesion nephroblastomatosis. Finally, we can show that even the standard MRI modality for Wilms’ tumors is sufficient to estimate the developmental tendencies of nephroblastoma under chemotherapy

From representation learning to thematic classification - Application to hierarchical analysis of hyperspectral images

Numerous frameworks have been developed in order to analyze the increasing amount of available image data. Among those methods, supervised classification has received considerable attention leading to the development of state-of-the-art classification methods. These methods aim at inferring the class of each observation given a specific class nomenclature by exploiting a set of labeled observations. Thanks to extensive research efforts of the community, classification methods have become very efficient. Nevertheless, the results of a classification remains a highlevel interpretation of the scene since it only gives a single class to summarize all information in a given pixel. Contrary to classification methods, representation learning methods are model-based approaches designed especially to handle high-dimensional data and extract meaningful latent variables. By using physic-based models, these methods allow the user to extract very meaningful variables and get a very detailed interpretation of the considered image. The main objective of this thesis is to develop a unified framework for classification and representation learning. These two methods provide complementary approaches allowing to address the problem using a hierarchical modeling approach. The representation learning approach is used to build a low-level model of the data whereas classification is used to incorporate supervised information and may be seen as a high-level interpretation of the data. Two different paradigms, namely Bayesian models and optimization approaches, are explored to set up this hierarchical model. The proposed models are then tested in the specific context of hyperspectral imaging where the representation learning task is specified as a spectral unmixing proble

Resolution enhancement for drill-core hyperspectral mineral mapping

Drill-core samples are a key component in mineral exploration campaigns, and their rapid and objective analysis is becoming increasingly important. Hyperspectral imaging of drill-cores is a non-destructive technique that allows for non-invasive and fast mapping of mineral phases and alteration patterns. The use of adapted machine learning techniques such as supervised learning algorithms allows for a robust and accurate analysis of drill-core hyperspectral data. One of the remaining challenge is the spatial sampling of hyperspectral sensors in operational conditions, which does not allow us to render the textural and mineral diversity that is required to map minerals with low abundances and fine structures such as veins and faults. In this work, we propose a methodology in which we implement a resolution enhancement technique, a coupled non-negative matrix factorization, using hyperspectral, RGB images and high-resolution mineralogical data to produce mineral maps at higher spatial resolutions and to improve the mapping of minerals. The results demonstrate that the enhanced maps not only provide better details in the alteration patterns such as veins but also allow for mapping minerals that were previously hidden in the hyperspectral data due to its low spatial sampling

Rich probabilistic models for semantic labeling

Das Ziel dieser Monographie ist es die Methoden und Anwendungen des semantischen Labelings zu erforschen. Unsere Beiträge zu diesem sich rasch entwickelten Thema sind bestimmte Aspekte der Modellierung und der Inferenz in probabilistischen Modellen und ihre Anwendungen in den interdisziplinären Bereichen der Computer Vision sowie medizinischer Bildverarbeitung und Fernerkundung

Optimization for Image Segmentation

Image segmentation, i.e., assigning each pixel a discrete label, is an essential task in computer vision with lots of applications. Major techniques for segmentation include for example Markov Random Field (MRF), Kernel Clustering (KC), and nowadays popular Convolutional Neural Networks (CNN). In this work, we focus on optimization for image segmentation. Techniques like MRF, KC, and CNN optimize MRF energies, KC criteria, or CNN losses respectively, and their corresponding optimization is very different. We are interested in the synergy and the complementary benefits of MRF, KC, and CNN for interactive segmentation and semantic segmentation. Our first contribution is pseudo-bound optimization for binary MRF energies that are high-order or non-submodular. Secondly, we propose Kernel Cut, a novel formulation for segmentation, which combines MRF regularization with Kernel Clustering. We show why to combine KC with MRF and how to optimize the joint objective. In the third part, we discuss how deep CNN segmentation can benefit from non-deep (i.e., shallow) methods like MRF and KC. In particular, we propose regularized losses for weakly-supervised CNN segmentation, in which we can integrate MRF energy or KC criteria as part of the losses. Minimization of regularized losses is a principled approach to semi-supervised learning, in general. Our regularized loss method is very simple and allows different kinds of regularization losses for CNN segmentation. We also study the optimization of regularized losses beyond gradient descent. Our regularized losses approach achieves state-of-the-art accuracy in semantic segmentation with near full supervision quality

Panchromatic and multispectral image fusion for remote sensing and earth observation: Concepts, taxonomy, literature review, evaluation methodologies and challenges ahead

Panchromatic and multispectral image fusion, termed pan-sharpening, is to merge the spatial and spectral information of the source images into a fused one, which has a higher spatial and spectral resolution and is more reliable for downstream tasks compared with any of the source images. It has been widely applied to image interpretation and pre-processing of various applications. A large number of methods have been proposed to achieve better fusion results by considering the spatial and spectral relationships among panchromatic and multispectral images. In recent years, the fast development of artificial intelligence (AI) and deep learning (DL) has significantly enhanced the development of pan-sharpening techniques. However, this field lacks a comprehensive overview of recent advances boosted by the rise of AI and DL. This paper provides a comprehensive review of a variety of pan-sharpening methods that adopt four different paradigms, i.e., component substitution, multiresolution analysis, degradation model, and deep neural networks. As an important aspect of pan-sharpening, the evaluation of the fused image is also outlined to present various assessment methods in terms of reduced-resolution and full-resolution quality measurement. Then, we conclude this paper by discussing the existing limitations, difficulties, and challenges of pan-sharpening techniques, datasets, and quality assessment. In addition, the survey summarizes the development trends in these areas, which provide useful methodological practices for researchers and professionals. Finally, the developments in pan-sharpening are summarized in the conclusion part. The aim of the survey is to serve as a referential starting point for newcomers and a common point of agreement around the research directions to be followed in this exciting area

Panchromatic and multispectral image fusion for remote sensing and earth observation: Concepts, taxonomy, literature review, evaluation methodologies and challenges ahead

Panchromatic and multispectral image fusion, termed pan-sharpening, is to merge the spatial and spectral information of the source images into a fused one, which has a higher spatial and spectral resolution and is more reliable for downstream tasks compared with any of the source images. It has been widely applied to image interpretation and pre-processing of various applications. A large number of methods have been proposed to achieve better fusion results by considering the spatial and spectral relationships among panchromatic and multispectral images. In recent years, the fast development of artificial intelligence (AI) and deep learning (DL) has significantly enhanced the development of pan-sharpening techniques. However, this field lacks a comprehensive overview of recent advances boosted by the rise of AI and DL. This paper provides a comprehensive review of a variety of pan-sharpening methods that adopt four different paradigms, i.e., component substitution, multiresolution analysis, degradation model, and deep neural networks. As an important aspect of pan-sharpening, the evaluation of the fused image is also outlined to present various assessment methods in terms of reduced-resolution and full-resolution quality measurement. Then, we conclude this paper by discussing the existing limitations, difficulties, and challenges of pan-sharpening techniques, datasets, and quality assessment. In addition, the survey summarizes the development trends in these areas, which provide useful methodological practices for researchers and professionals. Finally, the developments in pan-sharpening are summarized in the conclusion part. The aim of the survey is to serve as a referential starting point for newcomers and a common point of agreement around the research directions to be followed in this exciting area

3D Segmentation & Measurement of Macular Holes

Macular holes are blinding conditions where a hole develops in the central part of retina, resulting in reduced central vision. The prognosis and treatment options are related to a number of variables including the macular hole size and shape. In this work we introduce a method to segment and measure macular holes in three-dimensional (3D) data. High-resolution spectral domain optical coherence tomography (SD-OCT) allows precise imaging of the macular hole geometry in three dimensions, but the measurement of these by human observers is time consuming and prone to high inter- and intra-observer variability, being characteristically measured in 2D rather than 3D. This work introduces several novel techniques to automatically retrieve accurate 3D measurements of the macular hole, including surface area, base area, base diameter, top area, top diameter, height, and minimum diameter. Specifically, it is introducing a multi-scale 3D level set segmentation approach based on a state-of-the-art level set method, and introducing novel curvature-based cutting and 3D measurement procedures. The algorithm is fully automatic, and we validate the extracted measurements both qualitatively and quantitatively, where the results show the method to be robust across a variety of scenarios. A segmentation software package is presented for targeting medical and biological applications, with a high level of visual feedback and several usability enhancements over existing packages. Specifically, it is providing a substantially faster graphics processing unit (GPU) implementation of the local Gaussian distribution fitting (LGDF) energy model, which can segment inhomogeneous objects with poorly defined boundaries as often encountered in biomedical images. It also provides interactive brushes to guide the segmentation process in a semi-automated framework. The speed of implementation allows us to visualise the active surface in real-time with a built-in ray tracer, where users may halt evolution at any timestep to correct implausible segmentation by painting new blocking regions or new seeds. Quantitative and qualitative validation is presented, demonstrating the practical efficacy of the interactive elements for a variety of real-world datasets. The size of macular holes is known to be one of the strongest predictors of surgical success both anatomically and functionally. Furthermore, it is used to guide the choice of treatment, the optimum surgical approach and to predict outcome. Our automated 3D image segmentation algorithm has extracted 3D shape-based macular hole measurements and described the dimensions and morphology. Our approach is able to robustly and accurately measure macular hole dimensions. This thesis is considered as a significant contribution for clinical applications particularly in the field of macular hole segmentation and shape analysis