Automatic alignment for three-dimensional tomographic reconstruction

In tomographic reconstruction, the goal is to reconstruct an unknown object from a collection of line integrals. Given a complete sampling of such line integrals for various angles and directions, explicit inverse formulas exist to reconstruct the object. Given noisy and incomplete measurements, the inverse problem is typically solved through a regularized least-squares approach. A challenge for both approaches is that in practice the exact directions and offsets of the x-rays are only known approximately due to, e.g. calibration errors. Such errors lead to artifacts in the reconstructed image. In the case of sufficient sampling and geometrically simple misalignment, the measurements can be corrected by exploiting so-called consistency conditions. In other cases, such conditions may not apply and we have to solve an additional inverse problem to retrieve the angles and shifts. In this paper we propose a general algorithmic framework for retrieving these parameters in conjunction with an algebraic reconstruction technique. The proposed approach is illustrated by numerical examples for both simulated data and an electron tomography dataset

Fixing Nonconvergence of Algebraic Iterative Reconstruction with an Unmatched Backprojector

We consider algebraic iterative reconstruction methods with applications in image reconstruction. In particular, we are concerned with methods based on an unmatched projector/backprojector pair; i.e., the backprojector is not the exact adjoint or transpose of the forward projector. Such situations are common in large-scale computed tomography, and we consider the common situation where the method does not converge due to the nonsymmetry of the iteration matrix. We propose a modified algorithm that incorporates a small shift parameter, and we give the conditions that guarantee convergence of this method to a fixed point of a slightly perturbed problem. We also give perturbation bounds for this fixed point. Moreover, we discuss how to use Krylov subspace methods to efficiently estimate the leftmost eigenvalue of a certain matrix to select a proper shift parameter. The modified algorithm is illustrated with test problems from computed tomography

Inversion of the star transform

We define the star transform as a generalization of the broken ray transform introduced by us in previous work. The advantages of using the star transform include the possibility to reconstruct the absorption and the scattering coefficients of the medium separately and simultaneously (from the same data) and the possibility to utilize scattered radiation which, in the case of the conventional X-ray tomography, is discarded. In this paper, we derive the star transform from physical principles, discuss its mathematical properties and analyze numerical stability of inversion. In particular, it is shown that stable inversion of the star transform can be obtained only for configurations involving odd number of rays. Several computationally-efficient inversion algorithms are derived and tested numerically.Comment: Accepted to Inverse Problems in this for

Projected Newton Method for noise constrained Tikhonov regularization

Tikhonov regularization is a popular approach to obtain a meaningful solution for ill-conditioned linear least squares problems. A relatively simple way of choosing a good regularization parameter is given by Morozov's discrepancy principle. However, most approaches require the solution of the Tikhonov problem for many different values of the regularization parameter, which is computationally demanding for large scale problems. We propose a new and efficient algorithm which simultaneously solves the Tikhonov problem and finds the corresponding regularization parameter such that the discrepancy principle is satisfied. We achieve this by formulating the problem as a nonlinear system of equations and solving this system using a line search method. We obtain a good search direction by projecting the problem onto a low dimensional Krylov subspace and computing the Newton direction for the projected problem. This projected Newton direction, which is significantly less computationally expensive to calculate than the true Newton direction, is then combined with a backtracking line search to obtain a globally convergent algorithm, which we refer to as the Projected Newton method. We prove convergence of the algorithm and illustrate the improved performance over current state-of-the-art solvers with some numerical experiments

Blind Ptychographic Phase Retrieval via Convergent Alternating Direction Method of Multipliers

Ptychography has risen as a reference X-ray imaging technique: it achieves resolutions of one billionth of a meter, macroscopic field of view, or the capability to retrieve chemical or magnetic contrast, among other features. A ptychographyic reconstruction is normally formulated as a blind phase retrieval problem, where both the image (sample) and the probe (illumination) have to be recovered from phaseless measured data. In this article we address a nonlinear least squares model for the blind ptychography problem with constraints on the image and the probe by maximum likelihood estimation of the Poisson noise model. We formulate a variant model that incorporates the information of phaseless measurements of the probe to eliminate possible artifacts. Next, we propose a generalized alternating direction method of multipliers designed for the proposed nonconvex models with convergence guarantee under mild conditions, where their subproblems can be solved by fast element-wise operations. Numerically, the proposed algorithm outperforms state-of-the-art algorithms in both speed and image quality.Comment: 23 page

Refraction-corrected ray-based inversion for three-dimensional ultrasound tomography of the breast

Ultrasound Tomography has seen a revival of interest in the past decade, especially for breast imaging, due to improvements in both ultrasound and computing hardware. In particular, three-dimensional ultrasound tomography, a fully tomographic method in which the medium to be imaged is surrounded by ultrasound transducers, has become feasible. In this paper, a comprehensive derivation and study of a robust framework for large-scale bent-ray ultrasound tomography in 3D for a hemispherical detector array is presented. Two ray-tracing approaches are derived and compared. More significantly, the problem of linking the rays between emitters and receivers, which is challenging in 3D due to the high number of degrees of freedom for the trajectory of rays, is analysed both as a minimisation and as a root-finding problem. The ray-linking problem is parameterised for a convex detection surface and three robust, accurate, and efficient ray-linking algorithms are formulated and demonstrated. To stabilise these methods, novel adaptive-smoothing approaches are proposed that control the conditioning of the update matrices to ensure accurate linking. The nonlinear UST problem of estimating the sound speed was recast as a series of linearised subproblems, each solved using the above algorithms and within a steepest descent scheme. The whole imaging algorithm was demonstrated to be robust and accurate on realistic data simulated using a full-wave acoustic model and an anatomical breast phantom, and incorporating the errors due to time-of-flight picking that would be present with measured data. This method can used to provide a low-artefact, quantitatively accurate, 3D sound speed maps. In addition to being useful in their own right, such 3D sound speed maps can be used to initialise full-wave inversion methods, or as an input to photoacoustic tomography reconstructions