Texture analysis and Its applications in biomedical imaging: a survey

Texture analysis describes a variety of image analysis techniques that quantify the variation in intensity and pattern. This paper provides an overview of several texture analysis approaches addressing the rationale supporting them, their advantages, drawbacks, and applications. This survey’s emphasis is in collecting and categorising over five decades of active research on texture analysis.Brief descriptions of different approaches are presented along with application examples. From a broad range of texture analysis applications, this survey’s final focus is on biomedical image analysis. An up-to-date list of biological tissues and organs in which disorders produce texture changes that may be used to spot disease onset and progression is provided. Finally, the role of texture analysis methods as biomarkers of disease is summarised.Manuscript received February 3, 2021; revised June 23, 2021; accepted September 21, 2021. Date of publication September 27, 2021; date of current version January 24, 2022. This work was supported in part by the Portuguese Foundation for Science and Technology (FCT) under Grants PTDC/EMD-EMD/28039/2017, UIDB/04950/2020, PestUID/NEU/04539/2019, and CENTRO-01-0145-FEDER-000016 and by FEDER-COMPETE under Grant POCI-01-0145-FEDER-028039. (Corresponding author: Rui Bernardes.)info:eu-repo/semantics/publishedVersio

Enhanced iris recognition: Algorithms for segmentation, matching and synthesis

This thesis addresses the issues of segmentation, matching, fusion and synthesis in the context of irises and makes a four-fold contribution. The first contribution of this thesis is a post matching algorithm that observes the structure of the differences in feature templates to enhance recognition accuracy. The significance of the scheme is its robustness to inaccuracies in the iris segmentation process. Experimental results on the CASIA database indicate the efficacy of the proposed technique. The second contribution of this thesis is a novel iris segmentation scheme that employs Geodesic Active Contours to extract the iris from the surrounding structures. The proposed scheme elicits the iris texture in an iterative fashion depending upon both the local and global conditions of the image. The performance of an iris recognition algorithm on both the WVU non-ideal and CASIA iris database is observed to improve upon application of the proposed segmentation algorithm. The third contribution of this thesis is the fusion of multiple instances of the same iris and multiple iris units of the eye, i.e., the left and right iris at the match score level. Using simple sum rule, it is demonstrated that both multi-instance and multi-unit fusion of iris can lead to a significant improvement in matching accuracy. The final contribution is a technique to create a large database of digital renditions of iris images that can be used to evaluate the performance of iris recognition algorithms. This scheme is implemented in two stages. In the first stage, a Markov Random Field model is used to generate a background texture representing the global iris appearance. In the next stage a variety of iris features, viz., radial and concentric furrows, collarette and crypts, are generated and embedded in the texture field. Experimental results confirm the validity of the synthetic irises generated using this technique

Two and three dimensional segmentation of multimodal imagery

The role of segmentation in the realms of image understanding/analysis, computer vision, pattern recognition, remote sensing and medical imaging in recent years has been significantly augmented due to accelerated scientific advances made in the acquisition of image data. This low-level analysis protocol is critical to numerous applications, with the primary goal of expediting and improving the effectiveness of subsequent high-level operations by providing a condensed and pertinent representation of image information. In this research, we propose a novel unsupervised segmentation framework for facilitating meaningful segregation of 2-D/3-D image data across multiple modalities (color, remote-sensing and biomedical imaging) into non-overlapping partitions using several spatial-spectral attributes. Initially, our framework exploits the information obtained from detecting edges inherent in the data. To this effect, by using a vector gradient detection technique, pixels without edges are grouped and individually labeled to partition some initial portion of the input image content. Pixels that contain higher gradient densities are included by the dynamic generation of segments as the algorithm progresses to generate an initial region map. Subsequently, texture modeling is performed and the obtained gradient, texture and intensity information along with the aforementioned initial partition map are used to perform a multivariate refinement procedure, to fuse groups with similar characteristics yielding the final output segmentation. Experimental results obtained in comparison to published/state-of the-art segmentation techniques for color as well as multi/hyperspectral imagery, demonstrate the advantages of the proposed method. Furthermore, for the purpose of achieving improved computational efficiency we propose an extension of the aforestated methodology in a multi-resolution framework, demonstrated on color images. Finally, this research also encompasses a 3-D extension of the aforementioned algorithm demonstrated on medical (Magnetic Resonance Imaging / Computed Tomography) volumes

The Multimodal Brain Tumor Image Segmentation Benchmark (BRATS)

In this paper we report the set-up and results of the Multimodal Brain Tumor Image Segmentation Benchmark (BRATS) organized in conjunction with the MICCAI 2012 and 2013 conferences. Twenty state-of-the-art tumor segmentation algorithms were applied to a set of 65 multi-contrast MR scans of low-and high-grade glioma patients-manually annotated by up to four raters-and to 65 comparable scans generated using tumor image simulation software. Quantitative evaluations revealed considerable disagreement between the human raters in segmenting various tumor sub-regions (Dice scores in the range 74%-85%), illustrating the difficulty of this task. We found that different algorithms worked best for different sub-regions (reaching performance comparable to human inter-rater variability), but that no single algorithm ranked in the top for all sub-regions simultaneously. Fusing several good algorithms using a hierarchical majority vote yielded segmentations that consistently ranked above all individual algorithms, indicating remaining opportunities for further methodological improvements. The BRATS image data and manual annotations continue to be publicly available through an online evaluation system as an ongoing benchmarking resource

A robust framework for medical image segmentation through adaptable class-specific representation

Medical image segmentation is an increasingly important component in virtual pathology, diagnostic imaging and computer-assisted surgery. Better hardware for image acquisition and a variety of advanced visualisation methods have paved the way for the development of computer based tools for medical image analysis and interpretation. The routine use of medical imaging scans of multiple modalities has been growing over the last decades and data sets such as the Visible Human Project have introduced a new modality in the form of colour cryo section data. These developments have given rise to an increasing need for better automatic and semiautomatic segmentation methods. The work presented in this thesis concerns the development of a new framework for robust semi-automatic segmentation of medical imaging data of multiple modalities. Following the specification of a set of conceptual and technical requirements, the framework known as ACSR (Adaptable Class-Specific Representation) is developed in the first case for 2D colour cryo section segmentation. This is achieved through the development of a novel algorithm for adaptable class-specific sampling of point neighbourhoods, known as the PGA (Path Growing Algorithm), combined with Learning Vector Quantization. The framework is extended to accommodate 3D volume segmentation of cryo section data and subsequently segmentation of single and multi-channel greyscale MRl data. For the latter the issues of inhomogeneity and noise are specifically addressed. Evaluation is based on comparison with previously published results on standard simulated and real data sets, using visual presentation, ground truth comparison and human observer experiments. ACSR provides the user with a simple and intuitive visual initialisation process followed by a fully automatic segmentation. Results on both cryo section and MRI data compare favourably to existing methods, demonstrating robustness both to common artefacts and multiple user initialisations. Further developments into specific clinical applications are discussed in the future work section

Video based detection of normal and anomalous behaviour of individuals

This PhD research has proposed novel computer vision and machine learning algorithms for the problem of video based anomalous event detection of individuals. Varieties of Hidden Markov Models were designed to model the temporal and spatial causalities of crowd behaviour. A Markov Random Field on top of a Gaussian Mixture Model is proposed to incorporate spatial context information during classification. Discriminative conditional random field methods are also proposed. Novel features are proposed to extract motion and appearance information. Most of the proposed approaches comprehensively outperform other techniques on publicly available datasets during the time of publications originating from the results

Perceptual texture similarity estimation

This thesis evaluates the ability of computational features to estimate perceptual texture similarity. In the first part of this thesis, we conducted two evaluation experiments on the ability of 51 computational feature sets to estimate perceptual texture similarity using two differ-ent evaluation methods, namely, pair-of-pairs based and retrieval based evaluations. These experiments compared the computational features to two sets of human derived ground-truth data, both of which are higher resolution than those commonly used. The first was obtained by free-grouping and the second by pair-of-pairs experiments. Using these higher resolution data, we found that the feature sets do not perform well when compared to human judgements. Our analysis shows that these computational feature sets either (1) only exploit power spectrum information or (2) only compute higher order statistics (HoS) on, at most, small local neighbourhoods. In other words, they cannot capture aperiodic, long-range spatial relationships. As we hypothesise that these long-range interactions are important for the human perception of texture similarity we carried out two more pair-of-pairs ex-periments, the results of which indicate that long-range interactions do provide humans with important cues for the perception of texture similarity. In the second part of this thesis we develop new texture features that can encode such data. We first examine the importance of three different types of visual information for human perception of texture. Our results show that contours are the most critical type of information for human discrimination of textures. Finally, we report the development of a new set of contour-based features which performed well on the free-grouping data and outperformed the 51 feature sets and another contour type feature set with the pair-of-pairs data

Supervised and unsupervised segmentation of textured images by efficient multi-level pattern classification

This thesis proposes new, efficient methodologies for supervised and unsupervised image segmentation based on texture information. For the supervised case, a technique for pixel classification based on a multi-level strategy that iteratively refines the resulting segmentation is proposed. This strategy utilizes pattern recognition methods based on prototypes (determined by clustering algorithms) and support vector machines. In order to obtain the best performance, an algorithm for automatic parameter selection and methods to reduce the computational cost associated with the segmentation process are also included. For the unsupervised case, the previous methodology is adapted by means of an initial pattern discovery stage, which allows transforming the original unsupervised problem into a supervised one. Several sets of experiments considering a wide variety of images are carried out in order to validate the developed techniques.Esta tesis propone metodologías nuevas y eficientes para segmentar imágenes a partir de información de textura en entornos supervisados y no supervisados. Para el caso supervisado, se propone una técnica basada en una estrategia de clasificación de píxeles multinivel que refina la segmentación resultante de forma iterativa. Dicha estrategia utiliza métodos de reconocimiento de patrones basados en prototipos (determinados mediante algoritmos de agrupamiento) y máquinas de vectores de soporte. Con el objetivo de obtener el mejor rendimiento, se incluyen además un algoritmo para selección automática de parámetros y métodos para reducir el coste computacional asociado al proceso de segmentación. Para el caso no supervisado, se propone una adaptación de la metodología anterior mediante una etapa inicial de descubrimiento de patrones que permite transformar el problema no supervisado en supervisado. Las técnicas desarrolladas en esta tesis se validan mediante diversos experimentos considerando una gran variedad de imágenes