Underwater image restoration: super-resolution and deblurring via sparse representation and denoising by means of marine snow removal

Underwater imaging has been widely used as a tool in many fields, however, a major issue is the quality of the resulting images/videos. Due to the light's interaction with water and its constituents, the acquired underwater images/videos often suffer from a significant amount of scatter (blur, haze) and noise. In the light of these issues, this thesis considers problems of low-resolution, blurred and noisy underwater images and proposes several approaches to improve the quality of such images/video frames. Quantitative and qualitative experiments validate the success of proposed algorithms

Fully Unsupervised Image Denoising, Diversity Denoising and Image Segmentation with Limited Annotations

Understanding the processes of cellular development and the interplay of cell shape changes, division and migration requires investigation of developmental processes at the spatial resolution of single cell. Biomedical imaging experiments enable the study of dynamic processes as they occur in living organisms. While biomedical imaging is essential, a key component of exposing unknown biological phenomena is quantitative image analysis. Biomedical images, especially microscopy images, are usually noisy owing to practical limitations such as available photon budget, sample sensitivity, etc. Additionally, microscopy images often contain artefacts due to the optical aberrations in microscopes or due to imperfections in camera sensor and internal electronics. The noisy nature of images as well as the artefacts prohibit accurate downstream analysis such as cell segmentation. Although countless approaches have been proposed for image denoising, artefact removal and segmentation, supervised Deep Learning (DL) based content-aware algorithms are currently the best performing for all these tasks. Supervised DL based methods are plagued by many practical limitations. Supervised denoising and artefact removal algorithms require paired corrupted and high quality images for training. Obtaining such image pairs can be very hard and virtually impossible in most biomedical imaging applications owing to photosensitivity and the dynamic nature of the samples being imaged. Similarly, supervised DL based segmentation methods need copious amounts of annotated data for training, which is often very expensive to obtain. Owing to these restrictions, it is imperative to look beyond supervised methods. The objective of this thesis is to develop novel unsupervised alternatives for image denoising, and artefact removal as well as semisupervised approaches for image segmentation. The first part of this thesis deals with unsupervised image denoising and artefact removal. For unsupervised image denoising task, this thesis first introduces a probabilistic approach for training DL based methods using parametric models of imaging noise. Next, a novel unsupervised diversity denoising framework is presented which addresses the fundamentally non-unique inverse nature of image denoising by generating multiple plausible denoised solutions for any given noisy image. Finally, interesting properties of the diversity denoising methods are presented which make them suitable for unsupervised spatial artefact removal in microscopy and medical imaging applications. In the second part of this thesis, the problem of cell/nucleus segmentation is addressed. The focus is especially on practical scenarios where ground truth annotations for training DL based segmentation methods are scarcely available. Unsupervised denoising is used as an aid to improve segmentation performance in the presence of limited annotations. Several training strategies are presented in this work to leverage the representations learned by unsupervised denoising networks to enable better cell/nucleus segmentation in microscopy data. Apart from DL based segmentation methods, a proof-of-concept is introduced which views cell/nucleus segmentation from the perspective of solving a label fusion problem. This method, through limited human interaction, learns to choose the best possible segmentation for each cell/nucleus using only a pool of diverse (and possibly faulty) segmentation hypotheses as input. In summary, this thesis seeks to introduce new unsupervised denoising and artefact removal methods as well as semi-supervised segmentation methods which can be easily deployed to directly and immediately benefit biomedical practitioners with their research

Active Mean Fields for Probabilistic Image Segmentation: Connections with Chan-Vese and Rudin-Osher-Fatemi Models

Segmentation is a fundamental task for extracting semantically meaningful regions from an image. The goal of segmentation algorithms is to accurately assign object labels to each image location. However, image-noise, shortcomings of algorithms, and image ambiguities cause uncertainty in label assignment. Estimating the uncertainty in label assignment is important in multiple application domains, such as segmenting tumors from medical images for radiation treatment planning. One way to estimate these uncertainties is through the computation of posteriors of Bayesian models, which is computationally prohibitive for many practical applications. On the other hand, most computationally efficient methods fail to estimate label uncertainty. We therefore propose in this paper the Active Mean Fields (AMF) approach, a technique based on Bayesian modeling that uses a mean-field approximation to efficiently compute a segmentation and its corresponding uncertainty. Based on a variational formulation, the resulting convex model combines any label-likelihood measure with a prior on the length of the segmentation boundary. A specific implementation of that model is the Chan-Vese segmentation model (CV), in which the binary segmentation task is defined by a Gaussian likelihood and a prior regularizing the length of the segmentation boundary. Furthermore, the Euler-Lagrange equations derived from the AMF model are equivalent to those of the popular Rudin-Osher-Fatemi (ROF) model for image denoising. Solutions to the AMF model can thus be implemented by directly utilizing highly-efficient ROF solvers on log-likelihood ratio fields. We qualitatively assess the approach on synthetic data as well as on real natural and medical images. For a quantitative evaluation, we apply our approach to the icgbench dataset

Very High Resolution (VHR) Satellite Imagery: Processing and Applications

Recently, growing interest in the use of remote sensing imagery has appeared to provide synoptic maps of water quality parameters in coastal and inner water ecosystems;, monitoring of complex land ecosystems for biodiversity conservation; precision agriculture for the management of soils, crops, and pests; urban planning; disaster monitoring, etc. However, for these maps to achieve their full potential, it is important to engage in periodic monitoring and analysis of multi-temporal changes. In this context, very high resolution (VHR) satellite-based optical, infrared, and radar imaging instruments provide reliable information to implement spatially-based conservation actions. Moreover, they enable observations of parameters of our environment at greater broader spatial and finer temporal scales than those allowed through field observation alone. In this sense, recent very high resolution satellite technologies and image processing algorithms present the opportunity to develop quantitative techniques that have the potential to improve upon traditional techniques in terms of cost, mapping fidelity, and objectivity. Typical applications include multi-temporal classification, recognition and tracking of specific patterns, multisensor data fusion, analysis of land/marine ecosystem processes and environment monitoring, etc. This book aims to collect new developments, methodologies, and applications of very high resolution satellite data for remote sensing. The works selected provide to the research community the most recent advances on all aspects of VHR satellite remote sensing

Comparative Analysis and Evaluation of Image inpainting Algorithms

Image inpainting refers to the task of filling in the missing or damaged regions of an image in an undetectable manner. There are a large variety of image inpainting algorithms existing in the literature. They can broadly be grouped into two categories such as Partial Differential Equation (PDE) based algorithms and Exemplar based Texture synthesis algorithms. However no recent study has been undertaken for a comparative evaluation of these algorithms. In this paper, we are comparing two different types of image inpainting algorithms. The algorithms analyzed are Marcelo Bertalmio’s PDE based inpainting algorithm and Zhaolin Lu et al’s exemplar based Image inpainting algorithm.Both theoretical analysis and experiments have made to analyze the results of these image inpainting algorithms on the basis of both qualitative and quantitative way. Keywords:Image inpainting, Exemplar based, Texture synthesis, Partial Differential Equation (PDE)

Medical imaging analysis with artificial neural networks

Given that neural networks have been widely reported in the research community of medical imaging, we provide a focused literature survey on recent neural network developments in computer-aided diagnosis, medical image segmentation and edge detection towards visual content analysis, and medical image registration for its pre-processing and post-processing, with the aims of increasing awareness of how neural networks can be applied to these areas and to provide a foundation for further research and practical development. Representative techniques and algorithms are explained in detail to provide inspiring examples illustrating: (i) how a known neural network with fixed structure and training procedure could be applied to resolve a medical imaging problem; (ii) how medical images could be analysed, processed, and characterised by neural networks; and (iii) how neural networks could be expanded further to resolve problems relevant to medical imaging. In the concluding section, a highlight of comparisons among many neural network applications is included to provide a global view on computational intelligence with neural networks in medical imaging

DIGITAL INPAINTING ALGORITHMS AND EVALUATION

Digital inpainting is the technique of filling in the missing regions of an image or a video using information from surrounding area. This technique has found widespread use in applications such as restoration, error recovery, multimedia editing, and video privacy protection. This dissertation addresses three significant challenges associated with the existing and emerging inpainting algorithms and applications. The three key areas of impact are 1) Structure completion for image inpainting algorithms, 2) Fast and efficient object based video inpainting framework and 3) Perceptual evaluation of large area image inpainting algorithms. One of the main approach of existing image inpainting algorithms in completing the missing information is to follow a two stage process. A structure completion step, to complete the boundaries of regions in the hole area, followed by texture completion process using advanced texture synthesis methods. While the texture synthesis stage is important, it can be argued that structure completion aspect is a vital component in improving the perceptual image inpainting quality. To this end, we introduce a global structure completion algorithm for completion of missing boundaries using symmetry as the key feature. While existing methods for symmetry completion require a-priori information, our method takes a non-parametric approach by utilizing the invariant nature of curvature to complete missing boundaries. Turning our attention from image to video inpainting, we readily observe that existing video inpainting techniques have evolved as an extension of image inpainting techniques. As a result, they suffer from various shortcoming including, among others, inability to handle large missing spatio-temporal regions, significantly slow execution time making it impractical for interactive use and presence of temporal and spatial artifacts. To address these major challenges, we propose a fundamentally different method based on object based framework for improving the performance of video inpainting algorithms. We introduce a modular inpainting scheme in which we first segment the video into constituent objects by using acquired background models followed by inpainting of static background regions and dynamic foreground regions. For static background region inpainting, we use a simple background replacement and occasional image inpainting. To inpaint dynamic moving foreground regions, we introduce a novel sliding-window based dissimilarity measure in a dynamic programming framework. This technique can effectively inpaint large regions of occlusions, inpaint objects that are completely missing for several frames, change in size and pose and has minimal blurring and motion artifacts. Finally we direct our focus on experimental studies related to perceptual quality evaluation of large area image inpainting algorithms. The perceptual quality of large area inpainting technique is inherently a subjective process and yet no previous research has been carried out by taking the subjective nature of the Human Visual System (HVS). We perform subjective experiments using eye-tracking device involving 24 subjects to analyze the effect of inpainting on human gaze. We experimentally show that the presence of inpainting artifacts directly impacts the gaze of an unbiased observer and this in effect has a direct bearing on the subjective rating of the observer. Specifically, we show that the gaze energy in the hole regions of an inpainted image show marked deviations from normal behavior when the inpainting artifacts are readily apparent