From the Publisher: 
The accessible presentation of this book gives both a general view of the entire computer vision enterprise and also offers sufficient detail to be able to build useful applications. Users learn techniques that have proven to be useful by first-hand experience and a wide range of mathematical methods. A CD-ROM with every copy of the text contains source code for programming practice, color images, and illustrative movies. Comprehensive and up-to-date, this book includes essential topics that either reflect practical significance or are of theoretical importance. Topics are discussed in substantial and increasing depth. Application surveys describe numerous important application areas such as image based rendering and digital libraries. Many important algorithms broken down and illustrated in pseudo code. Appropriate for use by engineers as a comprehensive reference to the computer vision enterprise.

Computer vision : a modern approach = 计算机视觉 : 一种现代的方法

Nuclear segmentation in digital microscopic tissue images can enable extraction of high-quality features for nuclear morphometrics and other analysis in computational pathology. Conventional image processing techniques, such as Otsu thresholding and watershed segmentation, do not work effectively on challenging cases, such as chromatin-sparse and crowded nuclei. In contrast, machine learning-based segmentation can generalize across various nuclear appearances. However, training machine learning algorithms requires data sets of images, in which a vast number of nuclei have been annotated. Publicly accessible and annotated data sets, along with widely agreed upon metrics to compare techniques, have catalyzed tremendous innovation and progress on other image classification problems, particularly in object recognition. Inspired by their success, we introduce a large publicly accessible data set of hematoxylin and eosin (H&E)-stained tissue images with more than 21000 painstakingly annotated nuclear boundaries, whose quality was validated by a medical doctor. Because our data set is taken from multiple hospitals and includes a diversity of nuclear appearances from several patients, disease states, and organs, techniques trained on it are likely to generalize well and work right out-of-the-box on other H&E-stained images. We also propose a new metric to evaluate nuclear segmentation results that penalizes object- and pixel-level errors in a unified manner, unlike previous metrics that penalize only one type of error. We also propose a segmentation technique based on deep learning that lays a special emphasis on identifying the nuclear boundaries, including those between the touching or overlapping nuclei, and works well on a diverse set of test images.

A Dataset and a Technique for Generalized Nuclear Segmentation for Computational Pathology

This paper presents a new supervised method for vessel segmentation in retinal images. This method remolds the task of segmentation as a problem of cross-modality data transformation from retinal image to vessel map. A wide and deep neural network with strong induction ability is proposed to model the transformation, and an efficient training strategy is presented. Instead of a single label of the center pixel, the network can output the label map of all pixels for a given image patch. Our approach outperforms reported state-of-the-art methods in terms of sensitivity, specificity and accuracy. The result of cross-training evaluation indicates its robustness to the training set. The approach needs no artificially designed feature and no preprocessing step, reducing the impact of subjective factors. The proposed method has the potential for application in image diagnosis of ophthalmologic diseases, and it may provide a new, general, high-performance computing framework for image segmentation.

A Cross-Modality Learning Approach for Vessel Segmentation in Retinal Images

Automatic segmentation of retinal vessels in fundus images plays an important role in the diagnosis of some diseases such as diabetes and hypertension. In this paper, we propose Deformable U-Net (DUNet), which exploits the retinal vessels’ local features with a U-shape architecture, in an end to end manner for retinal vessel segmentation. Inspired by the recently introduced deformable convolutional networks, we integrate the deformable convolution into the proposed network. The DUNet, with upsampling operators to increase the output resolution, is designed to extract context information and enable precise localization by combining low-level features with high-level ones. Furthermore, DUNet captures the retinal vessels at various shapes and scales by adaptively adjusting the receptive fields according to vessels’ scales and shapes. Public datasets: DRIVE, STARE, CHASE_DB1 and HRF are used to test our models. Detailed comparisons between the proposed network and the deformable neural network, U-Net are provided in our study. Results show that more detailed vessels can be extracted by DUNet and it exhibits state-of-the-art performance for retinal vessel segmentation with a global accuracy of 0.9566/0.9641/0.9610/0.9651 and AUC of 0.9802/0.9832/0.9804/0.9831 on DRIVE, STARE, CHASE_DB1 and HRF respectively. Moreover, to show the generalization ability of the DUNet, we use another two retinal vessel data sets, i.e., WIDE and SYNTHE, to qualitatively and quantitatively analyze and compare with other methods. Extensive cross-training evaluations are used to further assess the extendibility of DUNet. The proposed method has the potential to be applied to the early diagnosis of diseases.

DUNet: A deformable network for retinal vessel segmentation

Goal: In this work, we present an extensive description and evaluation of our method for blood vessel segmentation in fundus images based on a discriminatively trained fully connected conditional random field model. Methods: Standard segmentation priors such as a Potts model or total variation usually fail when dealing with thin and elongated structures. We overcome this difficulty by using a conditional random field model with more expressive potentials, taking advantage of recent results enabling inference of fully connected models almost in real time. Parameters of the method are learned automatically using a structured output support vector machine, a supervised technique widely used for structured prediction in a number of machine learning applications. Results: Our method, trained with state of the art features, is evaluated both quantitatively and qualitatively on four publicly available datasets: DRIVE, STARE, CHASEDB1, and HRF. Additionally, a quantitative comparison with respect to other strategies is included. Conclusion: The experimental results show that this approach outperforms other techniques when evaluated in terms of sensitivity, F1-score, G-mean, and Matthews correlation coefficient. Additionally, it was observed that the fully connected model is able to better distinguish the desired structures than the local neighborhood-based approach. Significance: Results suggest that this method is suitable for the task of segmenting elongated structures, a feature that can be exploited to contribute with other medical and biological applications.

/pdf/a-discriminatively-trained-fully-connected-conditional-29gv5ppedb.pdf

A Discriminatively Trained Fully Connected Conditional Random Field Model for Blood Vessel Segmentation in Fundus Images

Automatic assessment of retinal vessels plays an important role in the diagnosis of various eye, as well as systemic diseases. A public screening is highly desirable for prompt and effective treatment, since such diseases need to be diagnosed at an early stage. Automated and accurate segmentation of the retinal blood vessel tree is one of the challenging tasks in the computer-aided analysis of fundus images today. We improve the concept of matched filtering, and propose a novel and accurate method for segmenting retinal vessels. Our goal is to be able to segment blood vessels with varying vessel diameters in high-resolution colour fundus images. All recent authors compare their vessel segmentation results to each other using only low-resolution retinal image databases. Consequently, we provide a new publicly available high-resolution fundus image database of healthy and pathological retinas. Our performance evaluation shows that the proposed blood vessel segmentation approach is at least comparable with recent state-of-the-art methods. It outperforms most of them with an accuracy of 95% evaluated on the new database.

https://ietresearch.onlinelibrary.wiley.com/doi/epdf/10.1049/iet-ipr.2012.0455

Retinal vessel segmentation by improved matched filtering: evaluation on a new high-resolution fundus image database

Because of its non-destructive nature, label-free imaging is an important strategy for studying biological processes. However, routine microscopic techniques like phase contrast or DIC suffer from shadow-cast artifacts making automatic segmentation challenging. The aim of this study was to compare the segmentation efficacy of published steps of segmentation work-flow (image reconstruction, foreground segmentation, cell detection (seed-point extraction) and cell (instance) segmentation) on a dataset of the same cells from multiple contrast microscopic modalities. We built a collection of routines aimed at image segmentation of viable adherent cells grown on the culture dish acquired by phase contrast, differential interference contrast, Hoffman modulation contrast and quantitative phase imaging, and we performed a comprehensive comparison of available segmentation methods applicable for label-free data. We demonstrated that it is crucial to perform the image reconstruction step, enabling the use of segmentation methods originally not applicable on label-free images. Further we compared foreground segmentation methods (thresholding, feature-extraction, level-set, graph-cut, learning-based), seed-point extraction methods (Laplacian of Gaussians, radial symmetry and distance transform, iterative radial voting, maximally stable extremal region and learning-based) and single cell segmentation methods. We validated suitable set of methods for each microscopy modality and published them online. We demonstrate that image reconstruction step allows the use of segmentation methods not originally intended for label-free imaging. In addition to the comprehensive comparison of methods, raw and reconstructed annotated data and Matlab codes are provided.

/pdf/cell-segmentation-methods-for-label-free-contrast-microscopy-4035ft6953.pdf

Cell segmentation methods for label-free contrast microscopy: review and comprehensive comparison.

Detection of Glaucomatous Eye via Color Fundus Images Using Fractal Dimensions

This paper deals with registration of retinal images, which were taken by high-resolution digital colour fundus cameras. The proposed method describes successful application of phase correlation method. It combines several basic steps — global correction of shift, rotation and scaling, detection of landmarks, their correspondences and finally image registration using second-order polynomial model. The method is tested on two sets of images. The first set contains images from the diabetic patients where many retinal pathologies can disturb the registration process. The second set contains images from healthy subjects, which were acquired by different illumination conditions. The method was evaluated using four different criteria - tree objective and one subjective. These criteria are also compared. The achieved registration accuracy of the landmarks position error is 1·13 and 0·93 pixels for respective image sets. Finally, the simple scheme for retinal pathology visualisation of registered fundus p...

Hybrid retinal image registration using phase correlation

This article deals with the comparison of various estimators of the m parameter from the Nakagami distribution. This kind of distribution has been used in many engineering applications and we present another possible application in biomedical engineering, particularly the ultrasound tissue characterization in the echocardiographic application. Matlab 6.5 was used as a proper tool for fast and efficient scientific research. ( ) ( ) 0 e 2 2 1 2 ≥ Ω Γ =         Ω − − V V m m V p mV

Radim Kolar

Papers

Retinal vessel segmentation by improved matched filtering: evaluation on a new high-resolution fundus image database

Cell segmentation methods for label-free contrast microscopy: review and comprehensive comparison.

Detection of Glaucomatous Eye via Color Fundus Images Using Fractal Dimensions

Hybrid retinal image registration using phase correlation

Estimator Comparison of the Nakagami-m Parameter and its Application in Echocardiography