3D exemplar-based image inpainting in electron microscopy

In electron microscopy (EM) a common problem is the non-availability of data, which causes artefacts in reconstructions. In this thesis the goal is to generate artificial data where missing in EM by using exemplar-based inpainting (EBI). We implement an accelerated 3D version tailored to applications in EM, which reduces reconstruction times from days to minutes. We develop intelligent sampling strategies to find optimal data as input for reconstruction methods. Further, we investigate approaches to reduce electron dose and acquisition time. Sparse sampling followed by inpainting is the most promising approach. As common evaluation measures may lead to misinterpretation of results in EM and falsify a subsequent analysis, we propose to use application driven metrics and demonstrate this in a segmentation task. A further application of our technique is the artificial generation of projections in tiltbased EM. EBI is used to generate missing projections, such that the full angular range is covered. Subsequent reconstructions are significantly enhanced in terms of resolution, which facilitates further analysis of samples. In conclusion, EBI proves promising when used as an additional data generation step to tackle the non-availability of data in EM, which is evaluated in selected applications. Enhancing adaptive sampling methods and refining EBI, especially considering the mutual influence, promotes higher throughput in EM using less electron dose while not lessening quality.Ein häufig vorkommendes Problem in der Elektronenmikroskopie (EM) ist die Nichtverfügbarkeit von Daten, was zu Artefakten in Rekonstruktionen führt. In dieser Arbeit ist es das Ziel fehlende Daten in der EM künstlich zu erzeugen, was durch Exemplar-basiertes Inpainting (EBI) realisiert wird. Wir implementieren eine auf EM zugeschnittene beschleunigte 3D Version, welche es ermöglicht, Rekonstruktionszeiten von Tagen auf Minuten zu reduzieren. Wir entwickeln intelligente Abtaststrategien, um optimale Datenpunkte für die Rekonstruktion zu erhalten. Ansätze zur Reduzierung von Elektronendosis und Aufnahmezeit werden untersucht. Unterabtastung gefolgt von Inpainting führt zu den besten Resultaten. Evaluationsmaße zur Beurteilung der Rekonstruktionsqualität helfen in der EM oft nicht und können zu falschen Schlüssen führen, weswegen anwendungsbasierte Metriken die bessere Wahl darstellen. Dies demonstrieren wir anhand eines Beispiels. Die künstliche Erzeugung von Projektionen in der neigungsbasierten Elektronentomographie ist eine weitere Anwendung. EBI wird verwendet um fehlende Projektionen zu generieren. Daraus resultierende Rekonstruktionen weisen eine deutlich erhöhte Auflösung auf. EBI ist ein vielversprechender Ansatz, um nicht verfügbare Daten in der EM zu generieren. Dies wird auf Basis verschiedener Anwendungen gezeigt und evaluiert. Adaptive Aufnahmestrategien und EBI können also zu einem höheren Durchsatz in der EM führen, ohne die Bildqualität merklich zu verschlechtern

Efficient Hybrid Image Warping for High Frame-Rate Stereoscopic Rendering

Modern virtual reality simulations require a constant high-frame rate from the rendering engine. They may also require very low latency and stereo images. Previous rendering engines for virtual reality applications have exploited spatial and temporal coherence by using image-warping to re-use previous frames or to render a stereo pair at lower cost than running the full render pipeline twice. However these previous approaches have shown artifacts or have not scaled well with image size. We present a new image-warping algorithm that has several novel contributions: an adaptive grid generation algorithm for proxy geometry for image warping; a low-pass hole-filling algorithm to address un-occlusion; and support for transparent surfaces by efficiently ray casting transparent fragments stored in per-pixel linked lists of an A-Buffer. We evaluate our algorithm with a variety of challenging test cases. The results show that it achieves better quality image-warping than state-of-the-art techniques and that it can support transparent surfaces effectively. Finally, we show that our algorithm can achieve image warping at rates suitable for practical use in a variety of applications on modern virtual reality equipment

FVV Live: A real-time free-viewpoint video system with consumer electronics hardware

FVV Live is a novel end-to-end free-viewpoint video system, designed for low cost and real-time operation, based on off-the-shelf components. The system has been designed to yield high-quality free-viewpoint video using consumer-grade cameras and hardware, which enables low deployment costs and easy installation for immersive event-broadcasting or videoconferencing. The paper describes the architecture of the system, including acquisition and encoding of multiview plus depth data in several capture servers and virtual view synthesis on an edge server. All the blocks of the system have been designed to overcome the limitations imposed by hardware and network, which impact directly on the accuracy of depth data and thus on the quality of virtual view synthesis. The design of FVV Live allows for an arbitrary number of cameras and capture servers, and the results presented in this paper correspond to an implementation with nine stereo-based depth cameras. FVV Live presents low motion-to-photon and end-to-end delays, which enables seamless free-viewpoint navigation and bilateral immersive communications. Moreover, the visual quality of FVV Live has been assessed through subjective assessment with satisfactory results, and additional comparative tests show that it is preferred over state-of-the-art DIBR alternatives

Real-time video-plus-depth content creation utilizing time-of-flight sensor - from capture to display

Recent developments in 3D camera technologies, display technologies and other related fields have been aiming to provide 3D experience for home user and establish services such as Three-Dimensional Television (3DTV) and Free-Viewpoint Television (FTV). Emerging multiview autostereoscopic displays do not require any eyewear and can be watched by multiple users at the same time, thus are very attractive for home environment usage. To provide a natural 3D impression, autostereoscopic 3D displays have been design to synthesize multi-perspective virtual views of a scene using Depth-Image-Based Rendering (DIBR) techniques. One key issue of DIBR is that scene depth information in a form of a depth map is required in order to synthesize virtual views. Acquiring this information is quite complex and challenging task and still an active research topic. In this thesis, the problem of dynamic 3D video content creation of real-world visual scenes is addressed. The work assumed data acquisition setting including Time-of-Flight (ToF) depth sensor and a single conventional video camera. The main objective of the work is to develop efficient algorithms for the stages of synchronous data acquisition, color and ToF data fusion, and final view-plus-depth frame formatting and rendering. The outcome of this thesis is a prototype 3DTV system capable for rendering live 3D video on a 3D autostereoscopic display. The presented system makes extensive use of the processing capabilities of modern Graphics Processing Units (GPUs) in order to achieve real-time processing rates while providing an acceptable visual quality. Furthermore, the issue of arbitrary view synthesis is investigated in the context of DIBR and a novel approach based on depth layering is proposed. The proposed approach is applicable for general virtual views synthesis, i.e. in terms of different camera parameters such as position, orientation, focal length and varying sensors spatial resolutions. The experimental results demonstrate real-time capability of the proposed method even for CPU-based implementations. It compares favorably to other view synthesis methods in terms of visual quality, while being more computationally efficient

Large-Scale Light Field Capture and Reconstruction

This thesis discusses approaches and techniques to convert Sparsely-Sampled Light Fields (SSLFs) into Densely-Sampled Light Fields (DSLFs), which can be used for visualization on 3DTV and Virtual Reality (VR) devices. Exemplarily, a movable 1D large-scale light field acquisition system for capturing SSLFs in real-world environments is evaluated. This system consists of 24 sparsely placed RGB cameras and two Kinect V2 sensors. The real-world SSLF data captured with this setup can be leveraged to reconstruct real-world DSLFs. To this end, three challenging problems require to be solved for this system: (i) how to estimate the rigid transformation from the coordinate system of a Kinect V2 to the coordinate system of an RGB camera; (ii) how to register the two Kinect V2 sensors with a large displacement; (iii) how to reconstruct a DSLF from a SSLF with moderate and large disparity ranges. To overcome these three challenges, we propose: (i) a novel self-calibration method, which takes advantage of the geometric constraints from the scene and the cameras, for estimating the rigid transformations from the camera coordinate frame of one Kinect V2 to the camera coordinate frames of 12-nearest RGB cameras; (ii) a novel coarse-to-fine approach for recovering the rigid transformation from the coordinate system of one Kinect to the coordinate system of the other by means of local color and geometry information; (iii) several novel algorithms that can be categorized into two groups for reconstructing a DSLF from an input SSLF, including novel view synthesis methods, which are inspired by the state-of-the-art video frame interpolation algorithms, and Epipolar-Plane Image (EPI) inpainting methods, which are inspired by the Shearlet Transform (ST)-based DSLF reconstruction approaches