Locally Adaptive Frames in the Roto-Translation Group and their Applications in Medical Imaging

Locally adaptive differential frames (gauge frames) are a well-known effective tool in image analysis, used in differential invariants and PDE-flows. However, at complex structures such as crossings or junctions, these frames are not well-defined. Therefore, we generalize the notion of gauge frames on images to gauge frames on data representations $U:\mathbb{R}^{d} \rtimes S^{d-1} \to \mathbb{R}$ defined on the extended space of positions and orientations, which we relate to data on the roto-translation group $SE(d)$, $d=2,3$. This allows to define multiple frames per position, one per orientation. We compute these frames via exponential curve fits in the extended data representations in $SE(d)$. These curve fits minimize first or second order variational problems which are solved by spectral decomposition of, respectively, a structure tensor or Hessian of data on $SE(d)$. We include these gauge frames in differential invariants and crossing preserving PDE-flows acting on extended data representation $U$ and we show their advantage compared to the standard left-invariant frame on $SE(d)$. Applications include crossing-preserving filtering and improved segmentations of the vascular tree in retinal images, and new 3D extensions of coherence-enhancing diffusion via invertible orientation scores

Seismic Ray Impedance Inversion

This thesis investigates a prestack seismic inversion scheme implemented in the ray parameter domain. Conventionally, most prestack seismic inversion methods are performed in the incidence angle domain. However, inversion using the concept of ray impedance, as it honours ray path variation following the elastic parameter variation according to Snell’s law, shows the capacity to discriminate different lithologies if compared to conventional elastic impedance inversion. The procedure starts with data transformation into the ray-parameter domain and then implements the ray impedance inversion along constant ray-parameter profiles. With different constant-ray-parameter profiles, mixed-phase wavelets are initially estimated based on the high-order statistics of the data and further refined after a proper well-to-seismic tie. With the estimated wavelets ready, a Cauchy inversion method is used to invert for seismic reflectivity sequences, aiming at recovering seismic reflectivity sequences for blocky impedance inversion. The impedance inversion from reflectivity sequences adopts a standard generalised linear inversion scheme, whose results are utilised to identify rock properties and facilitate quantitative interpretation. It has also been demonstrated that we can further invert elastic parameters from ray impedance values, without eliminating an extra density term or introducing a Gardner’s relation to absorb this term. Ray impedance inversion is extended to P-S converted waves by introducing the definition of converted-wave ray impedance. This quantity shows some advantages in connecting prestack converted wave data with well logs, if compared with the shearwave elastic impedance derived from the Aki and Richards approximation to the Zoeppritz equations. An analysis of P-P and P-S wave data under the framework of ray impedance is conducted through a real multicomponent dataset, which can reduce the uncertainty in lithology identification.Inversion is the key method in generating those examples throughout the entire thesis as we believe it can render robust solutions to geophysical problems. Apart from the reflectivity sequence, ray impedance and elastic parameter inversion mentioned above, inversion methods are also adopted in transforming the prestack data from the offset domain to the ray-parameter domain, mixed-phase wavelet estimation, as well as the registration of P-P and P-S waves for the joint analysis. The ray impedance inversion methods are successfully applied to different types of datasets. In each individual step to achieving the ray impedance inversion, advantages, disadvantages as well as limitations of the algorithms adopted are detailed. As a conclusion, the ray impedance related analyses demonstrated in this thesis are highly competent compared with the classical elastic impedance methods and the author would like to recommend it for a wider application

Compressed Sensing Based Reconstruction Algorithm for X-ray Dose Reduction in Synchrotron Source Micro Computed Tomography

Synchrotron computed tomography requires a large number of angular projections to reconstruct tomographic images with high resolution for detailed and accurate diagnosis. However, this exposes the specimen to a large amount of x-ray radiation. Furthermore, this increases scan time and, consequently, the likelihood of involuntary specimen movements. One approach for decreasing the total scan time and radiation dose is to reduce the number of projection views needed to reconstruct the images. However, the aliasing artifacts appearing in the image due to the reduced number of projection data, visibly degrade the image quality. According to the compressed sensing theory, a signal can be accurately reconstructed from highly undersampled data by solving an optimization problem, provided that the signal can be sparsely represented in a predefined transform domain. Therefore, this thesis is mainly concerned with designing compressed sensing-based reconstruction algorithms to suppress aliasing artifacts while preserving spatial resolution in the resulting reconstructed image. First, the reduced-view synchrotron computed tomography reconstruction is formulated as a total variation regularized compressed sensing problem. The Douglas-Rachford Splitting and the randomized Kaczmarz methods are utilized to solve the optimization problem of the compressed sensing formulation. In contrast with the first part, where consistent simulated projection data are generated for image reconstruction, the reduced-view inconsistent real ex-vivo synchrotron absorption contrast micro computed tomography bone data are used in the second part. A gradient regularized compressed sensing problem is formulated, and the Douglas-Rachford Splitting and the preconditioned conjugate gradient methods are utilized to solve the optimization problem of the compressed sensing formulation. The wavelet image denoising algorithm is used as the post-processing algorithm to attenuate the unwanted staircase artifact generated by the reconstruction algorithm. Finally, a noisy and highly reduced-view inconsistent real in-vivo synchrotron phase-contrast computed tomography bone data are used for image reconstruction. A combination of prior image constrained compressed sensing framework, and the wavelet regularization is formulated, and the Douglas-Rachford Splitting and the preconditioned conjugate gradient methods are utilized to solve the optimization problem of the compressed sensing formulation. The prior image constrained compressed sensing framework takes advantage of the prior image to promote the sparsity of the target image. It may lead to an unwanted staircase artifact when applied to noisy and texture images, so the wavelet regularization is used to attenuate the unwanted staircase artifact generated by the prior image constrained compressed sensing reconstruction algorithm. The visual and quantitative performance assessments with the reduced-view simulated and real computed tomography data from canine prostate tissue, rat forelimb, and femoral cortical bone samples, show that the proposed algorithms have fewer artifacts and reconstruction errors than other conventional reconstruction algorithms at the same x-ray dose