Speckle reducing bilateral filter for cattle follicle segmentation

<p>Abstract</p> <p>Background</p> <p>Ultrasound imaging technology has wide applications in cattle reproduction and has been used to monitor individual follicles and determine the patterns of follicular development. However, the speckles in ultrasound images affect the post-processing, such as follicle segmentation and finally affect the measurement of the follicles. In order to reduce the effect of speckles, a bilateral filter is developed in this paper.</p> <p>Results</p> <p>We develop a new bilateral filter for speckle reduction in ultrasound images for follicle segmentation and measurement. Different from the previous bilateral filters, the proposed bilateral filter uses normalized difference in the computation of the Gaussian intensity difference. We also present the results of follicle segmentation after speckle reduction. Experimental results on both synthetic images and real ultrasound images demonstrate the effectiveness of the proposed filter.</p> <p>Conclusions</p> <p>Compared with the previous bilateral filters, the proposed bilateral filter can reduce speckles in both high-intensity regions and low intensity regions in ultrasound images. The segmentation of the follicles in the speckle reduced images by the proposed method has higher performance than the segmentation in the original ultrasound image, and the images filtered by Gaussian filter, the conventional bilateral filter respectively.</p

Foetal echocardiographic segmentation

Congenital heart disease affects just under one percentage of all live births [1]. Those defects that manifest themselves as changes to the cardiac chamber volumes are the motivation for the research presented in this thesis. Blood volume measurements in vivo require delineation of the cardiac chambers and manual tracing of foetal cardiac chambers is very time consuming and operator dependent. This thesis presents a multi region based level set snake deformable model applied in both 2D and 3D which can automatically adapt to some extent towards ultrasound noise such as attenuation, speckle and partial occlusion artefacts. The algorithm presented is named Mumford Shah Sarti Collision Detection (MSSCD). The level set methods presented in this thesis have an optional shape prior term for constraining the segmentation by a template registered to the image in the presence of shadowing and heavy noise. When applied to real data in the absence of the template the MSSCD algorithm is initialised from seed primitives placed at the centre of each cardiac chamber. The voxel statistics inside the chamber is determined before evolution. The MSSCD stops at open boundaries between two chambers as the two approaching level set fronts meet. This has significance when determining volumes for all cardiac compartments since cardiac indices assume that each chamber is treated in isolation. Comparison of the segmentation results from the implemented snakes including a previous level set method in the foetal cardiac literature show that in both 2D and 3D on both real and synthetic data, the MSSCD formulation is better suited to these types of data. All the algorithms tested in this thesis are within 2mm error to manually traced segmentation of the foetal cardiac datasets. This corresponds to less than 10% of the length of a foetal heart. In addition to comparison with manual tracings all the amorphous deformable model segmentations in this thesis are validated using a physical phantom. The volume estimation of the phantom by the MSSCD segmentation is to within 13% of the physically determined volume

Locally Regularized Snakes through Smoothing B-Spline Filtering

Publication in the conference proceedings of EUSIPCO, Florence, Italy, 200

Review of Different Methods of Abnormal Mass Detection in Digital Mammograms

Various images from massive image databases extract inherent, implanted information or different examples explicitly found in the images. These images may help the community in initial self-screening breast cancer, and primary health care can introduce this method to the community. This study aimed to review the different methods of abnormal mass detection in digital mammograms. One of best methods for the detection of breast malignancy and discovery at a nascent stage is digital mammography. Some of the mammograms with excellent images have a high intensity of resolution that enables preparing images with high computations. The fact that medical images are so common on computers is one of the main things that helps radiologists make diagnoses. Image preprocessing highlights the portion after extraction and arrangement in computerized mammograms. Moreover, the future scope of examination for paving could be the way for a top invention in computer-aided diagnosis (CAD) for mammograms in the coming years. This also distinguished CAD that helped identify strategies for mass widely covered in the study work. However, the identification methods for structural deviation in mammograms are complicated in real-life scenarios. These methods will benefit the public health program if they can be introduced to primary health care's public health screening system. The decision should be made as to which type of technology fits the level of the primary health care system

Image Processing Techniques for Detecting Chromosome Abnormalities

With the increasing use of Fluorescence In Situ Hybridization (FISH) probes as markers for certain genetic sequences, the requirement of a proper image processing framework is becoming a necessity to accurately detect these probe signal locations in relation to the centerline of the chromosome. Automated detection and length measurements based on the centerline relative to the centromere and the telomere coordinates would highly assist in clinical diagnosis of genetic disorders and thus improve its efficiency significantly. Although many image processing techniques have been developed for chromosomal analysis such as ’’karyotype analysis” to assist in laboratory diagnosis, they fail to provide reliable results in segmenting and extracting the centerline of chromosomes due to the high variability in shape of chromosomes on microscope slides. In this thesis we propose a hybrid algorithm that utilizes Gradient Vector Flow active contours, Discrete Curve Evolution based skeleton pruning and morphological thinning to provide a robust and accurate centerline of the chromosome, which is then used for the measurement of the FISH probe signals. Then this centerline information is used to detect the centromere location of the chromosome and the probe signal location distances were measured with respective to these landmarks. The ability to accurately detect FISH probe locations with respective to its centerline and other landmarks can provide the cytogeneticists with detailed information that could lead to a faster diagnosis

Multi-resolution Active Models for Image Segmentation

Image segmentation refers to the process of subdividing an image into a set of non-overlapping regions. Image segmentation is a critical and essential step to almost all higher level image processing and pattern recognition approaches, where a good segmentation relieves higher level applications from considering irrelevant and noise data in the image. Image segmentation is also considered as the most challenging image processing step due to several reasons including spatial discontinuity of the region of interest and the absence of a universally accepted criteria for image segmentation. Among the huge number of segmentation approaches, active contour models or simply snakes receive a great attention in the literature. Where the contour/boundary of the region of interest is defined as the set of pixels at which the active contour reaches its equilibrium state. In general, two forces control the movement of the snake inside the image, internal force that prevents the snake from stretching and bending and external force that pulls the snake towards the desired object boundaries. One main limitation of active contour models is their sensitivity to image noise. Specifically, noise sensitivity leads the active contour to fail to properly converge, getting caught on spurious image features, preventing the iterative solver from taking large steps towards the final contour. Additionally, active contour initialization forms another type of limitation. Where, especially in noisy images, the active contour needs to be initialized relatively close to the object of interest, otherwise the active contour will be pulled by other non-real/spurious image features. This dissertation, aiming to improve the active model-based segmentation, introduces two models for building up the external force of the active contour. The first model builds up a scale-based-weighted gradient map from all resolutions of the undecimated wavelet transform, with preference given to coarse gradients over fine gradients. The undecimated wavelet transform, due to its near shift-invariance and the absence of down-sampling properties, produces well-localized gradient maps at all resolutions of the transform. Hence, the proposed final weighted gradient map is able to better drive the snake towards its final equilibrium state. Unlike other multiscale active contour algorithms that define a snake at each level of the hierarchy, our model defines a single snake with the external force field is simultaneously built based on gradient maps from all scales. The second model proposes the incorporation of the directional information, revealed by the dual tree complex wavelet transform (DT CWT), into the external force field of the active contour. At each resolution of the transform, a steerable set of convolution kernels is created and used for external force generation. In the proposed model, the size and the orientation of the kernels depend on the scale of the DT CWT and the local orientation statistics of each pixel. Experimental results using nature, synthetic and Optical Coherent Tomography (OCT) images reflect the superiority of the proposed models over the classical and the state-of-the-art models

Computational processing and analysis of ear images

Tese de mestrado. Engenharia Biomédica. Faculdade de Engenharia. Universidade do Porto. 201