CUQI is a research project at DTU Compute, headed by Prof. Per Chr. Hansen.
It is financed by VILLUM Fonden (the Villum Foundation) through a
Villum Investigator grant of DKK 34,899,255.
The project runs from Sept. 1, 2019 to August 31, 2025.
What is CUQI
CUQI is a research project where we develop a mathematical, statistical and computational framework for applying uncertainty quantification to inverse problems. We also develop a software package for UQ modeling and computations, see below.
Uncertainty Quantification, or simply UQ, characterizes the sensitivity of a solution taking into account errors and inaccuracies in the data, models, etc.
Inverse Problems determine hidden information from measurements in, e.g., deconvolution, image deblurring, tomographic imaging, source reconstruction, and fault inspection.
As an example, engineers who use X-ray imaging to inspect an object for defects can characterize the reliability of every details in the image - thus aiding the interpretation and decision whether a crack is actually present.
Villum Fonden (the Villum Foundation) is one of Denmark's largest research funding foundations with annual grants of approx. DKK 500 million. The aim is to foster research at the highest international level platformed at Danish universities and research institutions.
The Villum InvestIgator
The project is headed by Prof. Per Christian Hansen who specializes in numerical analysis, matrix computations, iterative methods, and computational methods for inverse problems.
His recent research projects were:
> High-Definition Tomography (HD-Tomo) funded by an ERC Advanced Research grant
> Improved Impedance Tomography with Hybrid Data, together with Prof. Kim Knudsen, funded by the Danish Council for Independent Research.
Per Christian Hansen is the (co-)author of five books, 100+ papers and seven software packages. His research focuses on computational methods, e.g., for regularization methods, imaging, tomography, and subspace methods for signal processing.
All his activities comprise a combination of theoretical insights and computational methods.
The Goal of the CUQI Project
Our research allows end-users of inverse problems, in science and engineering, to quantify the accuracy in their solutions, and in this way lower the risks and make more correct decisions.
We reach this goal by building general theoretical and computational foundations to quantify how model uncertainties, measurement noise, and other errors influence the solutions to inverse problems.
To do this we build on the solid mathematical and statistical foundation of uncertainty quantification. We also build a software package CUQIpy that allows experts and non-experts to apply UQ to their inverse problems, see below.
Based on our work, our aim is that UQ will become a natural part of solving inverse problems, in science and engineering.
In inverse problems we operate with a very large number of unknowns (e.g., pixels, voxels) and the computational burden can be overwhelming. Also, UQ for inverse problems raises new fundamental scientific questions that we must identify, formulate and answer properly. Hence, we need research in both theory and computational methods.
> The theoretical outcome is a mathematical and statistical basis for UQ studies of a range of inverse problems with different priors and noise models.
> The practical outcome is a modeling and computational platform – including an abstraction layer aimed at non-experts.
> The overall outcome is a framework to rigorously quantify the uncertainty of the solution’s details and identify the dominating types of errors.
To enable end-users to make use of our research, we release free open-source software that implements the theoretical and computational foundations developed during the project.
This is all released as part of the Python software package CUQIpy, which implements a computational abstraction layer for UQ studies of inverse problems aimed at non-experts.
In addition to the main software we also host individual software from papers and projects under the CUQI GitHub organization, including a growing collection of plugins for CUQIpy.
The picture shows the CUQIpy software team, as of Jan. 2023. From left to right: postdoc Nicolai A. B. Riis, postdoc Amal M. A. Alghamdi, and senior researcher Jakob S. Jørgensen.
You can read more about the CUQIpy software on this link: Free software quantifies uncertainties in scans.
And here is a YouTube video with a presentation of CUQIpy, given by Amal M. A. Alghamdi at the Bayes@Lund workshop on January 23, 2023.
Examples of our research in CUQI
Bayesian Inference with Constraints Through Projection and Randomized Linear Least Squares Problems
In many applications, the signal that is being reconstructed must satisfy some constraints, e.g., material densities being positive, pixels of an image lying between 0 and 1, or the energy of a signal being bounded. Therefore, adding such prior information to a Bayesian model improves the meaningfulness of the resulting posterior distribution.
A common method to model constraints in a prior distribution is truncation, i.e., choosing an unconstrained prior distribution and remove all probability outside of the constraint set. Another method is to reparametrize the signal, e.g., if the signal x is assumed to be positive, then it can be written as x = exp(z) and one can choose an unconstrained prior distribution for z. These two methods focus on the interior of the constraint set, but very often, signals of interest lie on the boundary of the constraint set.
As natural alternative, one can first sample from an unconstrained posterior distribution and then apply a suitable projection onto a convex constraint set C. The resulting implicit posterior will consist of the original density in the interior of the constraint set, and a “lower dimensional” distribution on the boundary, see the illustration below.
If the forward model is linear and both the likelihood and prior are Gaussian distributions, then the unconstrained sampling and projection can be done in a single step by repeatedly solving randomized constrained linear least square problems of the form
minx∈C || A x - bs ||22 + α || x - cs ||22 ,
where bs and cs are samples from suitable random distributions. The solutions of these optimization problems will be samples of a projected posterior.
Consider the problem of deblurring a noisy signal with prior knowledge that the signal lies in the interval [0,1]. The figure above shows the pointwise median and 99% credibility interval for such a problem using no constraints (left), only the lower bound (middle) and both upper and lower bounds (right). The projection framework significantly improves the quality of the median near the boundary.
This example was created by PhD student Jasper Everink.
The Horseshoe Prior for Edge-Preserving Reconstruction
If we want to reconstruct an image with sharp edges, we can use a Cauchy or Laplace distribution of the difference between neighbor pixels as the prior (this is related to total variation regularization). Unfortunately, these priors are computationally demanding. As as a computationally attractive alternative, we can use a so-called horseshoe prior that resembles the Cauchy and Laplace priors - see the figure below where the horseshoe prior's density is guaranteed to lie in the shaded band.
The main advantage of the horseshoe prior is that it imposes a conditionally Gaussian distribution on the differences, which allows more efficient computations because Gaussians can be handled with efficient least-squares methods. The difficulty is that the horseshoe prior has hyperpriors with heavy tails, and to alleviate this issue we propose an extended horseshoe prior that uses a scale-mixture representation of the heavy-tailed hyperpriors.
For the posterior, we exploit the extended horseshoe prior to compute conditional distributions for the associated parameters that can be sampled in closed form due to conjugacy. This allows the application of a Gibbs sampler.
Here we illustrate our method with a 1D deconvolution problem for two different noise levels, and we compare with posterior statistics obtained with a Laplace-difference prior proposed by Uribe, Bardsley, Dong, Hansen & Riis (2022). Compared to the Laplace-difference prior, we see that the horseshoe prior gives a sharper posterior (dotted lines) and a lower posterior uncertainty (the shaded area shows the 95% credibility interval). The solid line shows the ground truth.
The horseshoe prior originated in the statistical community, and here we introduce it in the setting of Bayesian inverse problem - see the paper by Uribe, Dong & Hansen (2022).
Boundary Detection in X-Ray CT Applications
When an X-ray passes through an object, its intensity is attenuated depending on the material's attenuation coefficient. The accumulated attenuation is the integral of the attenuation coefficient along the ray. We consider the case of 2D parallel-beam systems for which the measured data is called a sinogram.
Any X-ray going through the image is characterized by its slope θ with the horizontal axis. In practice, a full-angle geometry, i.e. when θ covers the entire interval [0,π), is not always possible. This could be due to obstacles in the CT measurement setup or to avoid unhealthy levels of radiation exposure. In such cases, a limited-angle geometry is needed, i.e., θ belongs to the reduced interval [0,θmax) with θmax ≪ π. In such a limited-angle setup, the quality of reconstructed image is compromised when conventional reconstruction methods, such as filtered back projection (FBP), are applied.
In many X-ray CT applications, the boundaries of objects contain valuable information, e.g., to differentiate between benign vs malignant tumors. A common approach in detecting boundaries is via an image segmentation post-processing step, but the quality of the estimated boundaries is compromised in a limited-angel imaging case.
We provide a novel goal-oriented, Bayesian framework for the limited-angel CT problem, in which we reconstruct the boundaries directly and quantify their uncertainty, and without the need for reconstructing the image. This approach avoids the error propagation and reduces the dimensionality of the problem from finding a 2D image to a 1D boundary of a region. In addition, our method estimates and performs UQ of the roughness/smoothness of the boundaries that carry important information for, e.g., medical imaging applications.
In the above plots, we see the performance of our method in estimating the boundaries of an object in the limited-angle CT setup with different θmax. The arrows indicate the angles of the X-rays and thus region of the limited-angle interval [0, θmax ). The estimated boundaries are shown in dark blue color, and the light blue region indicates the uncertainty in this estimation. The smaller the θmax the larger the uncertainty region - which is consistent with the results from microlocal analysis.
A paper by Afkham, Dong, and Hansen is submitted to SIAM/ASA J. Uncertainty Quantification. A related paper is submitted to IEEE Trans. Image Processing.
Defect Detection in X-Ray CT of Subsea Pipes
X-ray computed tomography (CT) is used to monitor the condition of subsea oil or gas pipes in operation, in order to detect defects that might cause leaks. In this example, we use data obtained in the test facilities at FORCE Technology. Computations are done with our CUQIpy software which draws upon the Core Imaging Library (CIL) for the CT models.
We formulate a Bayesian inverse problem with built-in defect detection. The goal is to detect defects and quantify their uncertainties. We express the CT problem as y = A (x+d) + e, where y is the measured X-ray absorption, e is data noise, and A is the linear forward model representing the physics and geometry of the measurements. We use a novel representation x + d of the unknown image to be reconstructed, expressed as a sum of two images; x contains the pipe structure and d contains potential defects.
In the Bayesian setting we formulate the joint posterior distribution p(x,d | y) ∝ p(y | x,d) p(x) p(d), where p(x,d | y) is the joint posterior distribution representing the solution to the CT problem, p(y | x,d) is the likelihood that represents the data misfit, while p(x) and p(d) are prior distributions representing any knowledge we have about the unknown images.
We impose priors that promote the structures we are looking for. For the pipe structure x, we use the structural Gaussian prior proposed by Christensen, Riis, Uribe & Jørgensen (submitted). The above figure shows a sample from this prior which promotes the known layered pipe structure. We expect small and few defects, and therefore we impose a prior that promotes both sparsity and correlation (a gamma Markov random field) in the defect image d (as described in a paper by Christensen, Riis, Pereyra & Jørgensen). We explore the conditional posterior distributions p(x | y,d) and p(d | y,x) using Gibbs sampling.
The figure above shows the means of the x-samples (left), the d-samples (middle), and their sum with annotation (right). These results indicate that our methodology has successfully separated the defects from the overall pipe structure. In the figure below we zoom-in on the defect reconstruction d for the annotated defects indicated in the figure above, for further investigation of these defects. The figure shows the mean of the posterior samples, as well as related UQ in the form of the standard deviation of the samples. Engineers can use these results to identify critical defects in the subsea pipes.
This is joint work with Assoc. Prof. Marcelo Pereyra from Heriot-Watt University. The example was created by PhD student Silja L. Christensen.
Handling Model Errors in Inverse Problems
Using an ideal and complex mathematical model will produce a good reconstruction in an inverse problem, but at a high computational cost. Instead, one can use a simplified approximate model that requires less computational work, but this often results in a poorer reconstruction. We use the Bayesian framework to study the model error between the ideal and approximate models and find ways to reduce its influence when solving a Bayesian inverse problem.We consider the general model
Since p(v | x) is difficult to characterize, we may assume that δ and x are independent. Samples of δ can then be generated by "pushing forward" samples of x from the prior for x through the relation δ = F(x,η) − f(x,η0). Unfortunately, such samples of δ are inferior because they lack information related to the likelihood p. We can obtain better samples of δ by pushing forward samples of x obtained via the posterior — and this process can be repeated in an iterative fashion.
We develop methods based on the above ideas and apply them to reconstruction problems in magnetic resonance electrical impedance tomography (MREIT) where the solution x represents the electric conductivity inside a circular domain.
The plots below show that our method improves on results obtained by either neglecting the model error or representing it approximately. Specifically, we show the exact solution x (top left) and estimates of x obtained without the model error (top right), with the model error obtained by pushing forward samples from the prior (bottom left), and with the model error obtained by pushing forward samples from the posterior, repeated three times (bottom right).
This is joint work with Prof. Bangti Jin from Chinese University of Hong Kong. The example was created by PhD student Puyuan Mi.
All members of the CUQI team are associated with the Section for Scientific Computing at DTU Compute.
Permanent Team Members
Specialist in noise modeling and computational methods for image processing.
Specialist in numerical analysis, iterative solvers, and computational methods for inverse problems.
Specialist in coupled-physics modeling, PDE-constrained optimization, functional analysis and electrical impedance tomography.
Project: goal-oriented uncertainty quantification.
Project: computational UQ for PDE problems.
Project: machine learning and UQ for inverse problems.
Project: efficient and flexible computational methods.
Professor Johnathan M. Bardsley, Department of Mathematical Sciences, University of Montana - specialist in computational methods for inverse problems and uncertainty quantification.
Associate Professor Matthias Chung, Department of Mathematics, Emory University - specialist in computational inverse problems, data analytics & learning, uncertainty quantification, and numerical optimization.
Professor Bangti Jin, Department of Mathematics, Chinese University of Hong Kong - specialist in theory and algorithms for inverse and ill-posed problems.
Associate Professor Marcelo Pereyra, Maxwell Institute for Mathematical Science and School of Mathematical and Computer Sciences, Heriot-Watts University - specialist in statistical, analytical and machine-learning paradigms.
Professor Tanja Tarvainen, Department of Applied Physics, University of Eastern Finland - specialist in computational methods for inverse problems and uncertainty quantification in imaging applications
Research Professor Faouzi Triki, Laboratoire Jean Kuntzman, Grenoble-Alpes University - specialist in inverse problems and mathematical modeling in optics.
Courses, Workshops, Training and Other Activities
Per Christian Hansen - Edge-Preserving Computed Tomography (CT) with Uncertain View Angles
Professor Per Christian Hansen gave an invited to talk on Feb. 7, 2023 in the online seminar series MATH4UQ organized by RWTH Aachen University. Here are the slides and a YouTube video.
Workshop: Imaging with Uncertainty Quantification (IUQ22)
September 27-29, 2022
This workshop brought together specialists in UQ for imaging, and the talks covered various aspects related to the development of theory, methodology and software, as well as applications of UQ in imaging. The goal was to stimulate networking and collaboration between researchers and students in these areas.
Before the workshop, we arranged a 1-day short course devoted to the Python software CUQIpy that we are currently developing for modeling and computations related to UQ for imaging.
For more details about the workshop, go to the IUQ22 Workshop homepage.
Felipe Uribe - Bayesian Inverse Problems
Postdoc Felipe Uribe was invited to talk about Bayesian inverse problems at the "Summer School on Recent Advancements in Computational and Learning Methods for Inverse Problems" (CLIP22), July 11–15: https://bugs.unica.it/cana/clip22/
Jakob Sauer Jørgensen - CUQIpy
Senior researcher Jakob Sauer Jørgensen was invited to talk about the software package CUQIpy at the "CIMPA Summer School 2022 Mathematical Methods in Data Analysis", July 18–29: https://sites.google.com/view/mathschoolinalbania/
PhD course: Introduction to Uncertainty Quantification for Inverse Problems
This course introduces state-of-the-art numerical methods for quantification and reduction of uncertainties in computational models. UQ is paramount to enhance analysis and prediction tasks in multiple applications such as tomography, material science, spatial statistics, reliability, etc. Therefore, the course can be of interest to students from any discipline in applied mathematics and engineering. The course provides the mathematical background for theory and methods of UQ, which are illustrated via Python exercises. We will also cover the use of the software package CUQIpy for performing UQ analysis.
Time: January 3–22, 2022 (3 week period at DTU). Next time: June 2024.
Course responsible: Associate Professor Yiqiu Dong, DTU Compute.
More details: Link to DTU's course description, course no. 02975.
PhD course: Bayesian Scientific Computing
The lectures focus on basic techniques in Bayesian methods, including probability distributions, Bayes' formula, conditioning, hierarchical models, estimation problems arising in this context, as well as certain numerical techniques for inverse problems, including regularization and iterative methods for solving large systems. The course is based on the book: D. Calvetti and E. Somersalo, Introduction to Bayesian Scientific Computing, Springer, 2007, as well as a new edition of it.
Time: December 9-13, 2019 (one full week).
Teachers: Professor Daniela Calvetti and Professor Erkki Somersalo, both from Case Western Reserve University, Cleveland, Ohio.
Course responsible: Professor Per Christian Hansen, DTU.
Workshop: Uncertainty Quantification for Inverse Problems
December 17 and 18, 2018
The goal of this workshop was to give the participants an introduction to the central ideas and computational methods for uncertainty quantification, with a focus on its application to inverse problems, and with illustrations from applications. The workshop is aimed at newcomers in the field, but more experienced user will also benefit from the presentations.
Our summer internships allow master students a unique chance to build on their acquired skills, and to obtain experience with research in computational methods and applications of uncertain quantification to inverse problems in science and engineering. We offer two different summer internships in 2023; see the links below.
We sponsor travel to Denmark, travel insurance, and reasonable accommodation expenses near DTU.
Your application for a CUQI summer internship must be sent to Professor Per Christian Hansen email@example.com no later than June 15, 2022.
Here we list submitted and published papers produced in the CUQI project.
- B. M. Afkham, J. Chung, and M. Chung, Learning regularization parameters of inverse problems via deep neural networks, Inverse Problems, 37 (2021), 105017, doi 10.1088/1361-6420/ac245d.
- B. M. Afkham, J. Chung, and M. Chung, Goal-oriented uncertainty quantification for inverse problems via variational encoder-decoder networks, submitted, arxiv.org/abs/2304.08324.
- B. M. Afkham, Y. Dong, and P. C. Hansen, Uncertainty quantification of inclusion boundaries in the context of X-ray tomography, SIAM/ASA J. Uncertainty Quantification, 11 (2023), pp. 31-61, doi 10.1137/21M1433782.
- A. M. Afkham, N. A. B. Riis, Y. Dong, and P. C. Hansen, Inferring features with uncertain roughness, submitted to IEEE Trans. Image Proc., arxiv.org/abs/2305.04608.
- A. M. A. Alghamdi, P. Chen, and M. Karamehmedović, Optimal design of photonic nanojets under uncertainty, submitted, arxiv.org/abs/2209.02454.
- A. M. Alghamdi, N. A. B. Riis, B. M. Afkham, F. Uribe, S. L. Christensen, P. C. Hansen, and J. S. Jørgensen, CUQIpy – Part II: computational uncertainty quantification for PDE-based inverse problems in Python, submitted to Inverse Problems.
- E. Ametova, G. Burca, S. Chilingaryan, G. Fardell, J. S. Jørgensen, E. Papoutsellis, E. Pasca, R. Warr, M. Turner, W. R. B. Lionheart, and P. J. Withers, Crystalline phase discriminating neutron tomography using advanced reconstruction methods, J. Phys. D: Appl. Phys., 54 (2021), 325502, doi 10.1088/1361-6463/ac02f9 (open access).
- E. Ametova, G. Burca, G. Fardell, J. S. Jørgensen, E. Papoutsellis, E. Pasca, R. Warr, M. Turner, W. R. B. Lionheart, and P. J. Withers, Joint reconstruction with a correlative regularisation technique for multi-channel neutron tomography, Proc.16th International Meeting on Fully 3D Image Reconstruction in Radiology and Nuclear Medicine, pp. 431–434 (2021), no doi; arxiv.org/abs/2110.04143.
- K. O. Bangsgaard and M. S. Andersen, A statistical reconstruction model for absorption CT with source uncertainty, Inverse Problems, 37 (2021), 085009, doi 10.1088/1361-6420/ac11c7.
- K. O. Bangsgaard, M. Andersen, J. G. Heaf, and J. T. Ottesen, Bayesian parameter estimation for phosphate dynamics during hemodialysis, Math, Biosci. Eng., 20 (2022), pp. 4455–4492, doi 10.3934/mbe.2023207 (open access).
- K. O. Bangsgaard, G. Burc, E. Ametova, M. S. Andersen, and J. S. Jørgensen, Low-rank flat-field correction for artifact reduction
in spectral computed tomography, Appl. Math. in Sci. Eng., 31 (2023), 2176000, doi 10.1080/27690911.2023.2176000 (open access).
- J. M. Bardsley and P. C. Hansen, MCMC algorithms for computational UQ of nonnegativity constrained linear inverse problems, SIAM J. Sci. Comput., 41 (2020), pp. A1269–1288, doi 10.1137/18M1234588.
- D. Caviedes-Nozal, F. M. Heuchel, J. Brunskog, N. A. B. Riis, and E. Fernandez-Grande, A Bayesian spherical harmonics source radiation model for sound field control, J. Acoust. Soc. Am., 146 (2019), pp. 3425–3435, doi 10.1121/1.5133384.
- D. Caviedes-Nozal, N. A. B. Riis, F. M. Heuchel, J. Brunskog, P. Gerstoft, and E. Fernandez-Grande, Gaussian processes for sound field reconstruction, J. Acoust. Soc. Amer., 140, article id 1107 (2021), doi 10.1121/10.0003497.
- D. Caviedes-Nozal, N. A. B. Riis, F. M. Heuchel, J. Brunskog, P. Gerstoft, and E. Fernandez-Grande, Acoustic Gaussian processes, J. Acoust. Soc. Am., 149 (2021), pp. 1107–1119, doi 10.1121/10.0003497.
- S. L. Christensen, N. A. B. Riis, F. Uribe, and J. S. Jørgensen, Structural Gaussian priors for Baysian CT reconstruction of subsea pipes, submitted to Appl. Math. in Sci. and Eng., arxiv.org/abs/2203.01030.
- Y. Dong and M. Pragliola, Including sparsity via horseshoe prior in imaging problems (2022), submitted.
- Y. Dong, C. Wu, and S. Yan, A fast method for simultaneous reconstruction and segmentation in X-ray CT application, Inverse Problems in Science and Engineering, 29 (2021), 3342–3359, doi 10.1080.17415977.2021.1999941.
- J. M. Everink, Y. Dong, and M. S. Andersen, Sparse Bayesian inference with regularized Gaussian distributions, submitted to Inverse Problems, arxiv:2302.07012.
- J. M. Everink, Y. Dong, and M. S. Andersen, Bayesian inference with projected densities, submitted to SIAM/ASA J. UQ, arxiv.org/abs/2209.12481.
- P. C. Hansen, K. Hayami, and K. Morikuni, GMRES methods for tomographic reconstruction with an unmatched back projector, J. Comp. Appl. Math., 413 (2022), 114352, doi 10.1016/j.cam.2022.114352 (open access).
- P. C. Hansen, J. S. Jørgensen, and W. R. B. Lionheart (Eds.), Computed Tomography: Algorithms, Insight, and Just Enough Theory, SIAM, PA, 2021; doi 0.1137/1.9781611976670.
- P. C. Hansen, J. S. Jørgensen, and P. W. Rasmussen, Stopping rules for algebraic iterative reconstruction methods in computed tomography; in 21st International Conference on Computational Science and Its Applications (ICCSA), IEEE (2021), pp. 60-70, doi 10.1109/ICCSA54496.2021.00019.
- B. C. S. Jensen, A. Engsig-Karup, and K. Knudsen, Efficient uncertainty quantification and variance-based sensitivity analysis in epidemic modeling using polynomial chaos, Math. Model. Nat. Phenom., 17, article no. 8 (2022); doi1 10.1051/mmnp/2022014 (open access).
- B. C. S. Jensen and K. Knudsen, Sound speed uncertainty in acousto-electric tomography, Inverse Problems, 37 (2021), Article ID: 125011, doi 10.1088/1361-6420/ac37f8.
- J. S. Jørgensen, E. Ametova, G. Burca, G. Fardell, E. Papoutsellis, E. Pasca, K. Thielemans, M. Turner, R. Warr, W. R. B. Lionheart, and P. J. Withers, Core Imaging Library - Part I: a versatile Python framework for tomographic imaging, Phil. Trans. Royal Soc. A, 379 (2021), Article ID: 20200193, 10.1098/rsta.2020.0192 (open access).
- M. Karamehmedović and K. Linder-Steinlein, Spectral properties of radiation for the Helmholtz equation with random coefficients, submitted to SIAM J. Appl. Math
- M. Karamehmedović, K. Scheel, F. L.-S. Pedersen, and P.-E. Hansen, Imaging with a steerable photonic nanojet probe, Proc. SPIE 12203, Enhanced Spectroscopies and Nanoimaging 2022, 1220306 (2022); doi 10.1117/12.2633442.
- M. Karamehmedović, K. Scheel, F. L.-S. Pedersen, A. Villegas, and P.-E. Hansen, Steerable photonic jet for super-resolution microscopy, Optics Express, 30 (2022), pp. 41757-41773, doi 10.1364/OE.472992.
- M. Karamehmedović and D. Winterrose, On the transfer of information in multiplier equations, submitted, arxiv.org/abs/1912.10760v2.
- A. Kirkeby, M. T. R. Henriksen, and M. Karamehmedović, Stability of the inverse source problem for the Helmholtz equation in R3, Inverse Problems, 36 (2020), 055007, doi 10.1088/1361-6420/ab762d.
- K. Knudsen and A. K. Rasmussen, Direct regularized reconstruction for the three-dimensional Calderón problem, Inverse Problems and Imaging, 16 (2022), pp. 871–894, doi 10.3934/ipi.2022002.
- E. Papoutsellis, E. Ametova, C. Delplancke, G. Fardell, J. S. Jørgensen, E. Pasca, M. Turner, R. Warr, W. R. B. Lionheart and P. J. Withers, Core Imaging Library - Part II: Multi-channel reconstruction for dynamic and spectral tomography, Phil. Trans. Royal Soc. A, 379 (2021), Article ID: 20200193. doi 10.1098/rsta.2020.0193 (open access).
- F. H. Pedersen, J. S. Jørgensen, and M. S. Andersen, A Bayesian approach to CT reconstruction with uncertain geometry, Appl. Math. Sci. Eng., 31 (2023), article id 2166041, doi 10.1080/27690911.2023.2166041 (open access).
- N. A. B. Riis, A. M. A. Alghamdi, F. Uribe, S. L. Christensen, B. M. Afkham, P. C. Hansen, and J. S. Jørgensen, CUQIpy – Part I: computational uncertainty
quantification for inverse problems in Python, submitted to Inverse Problems.
- N. A. B. Riis and Y. Dong, A new iterative method for CT reconstruction with uncertain view angles. In: J. Lellmann, M. Burger, and J. Modersitzki (eds), Scale Space and Variational Methods in Computer Vision. SSVM 2019. Lecture Notes in Computer Science, vol 11603, pp. 156–167 (2019). Springer, doi 10.1007/978-3-030-22368-7_13.
- N. A. B. Riis, Y. Dong, and P. C. Hansen, Computed tomography reconstruction with uncertain view angles by iteratively updated model discrepancy, J. Math. Imag., 63 (2021), pp. 133–143, doi 10.1007/s10851-020-00972-7. Also available: view-only version.
- N. A. B. Riis, Y. Dong, and P. C. Hansen, Computed tomography with view angle estimation using uncertainty quantification, Inverse Problems, 37 (2021), Articld ID 065007, doi 10.1088/1361-6420/abf5ba.
- K. Šehić, H. Bredmose, J. D. Sørensen, and M. Karamehmedović, Active-subspace analysis of exceedance probability for shallow-water waves, J. Eng. Math., 126 (2021), article no. 1, doi 10.1007/s10665-020-10080-5.
- K. Šehić, H. Bredmose, J. D. Sørensen, and M. Karamehmedović, Low-dimensional offshore wave input for extreme event quantification, J. Eng. Math., 126 (2021), article no. 13, doi 10.1007/s10665-021-10091-w.
- K. Šehić and M. Karamehmedović, Estimation of failure probabilities via local subset approximations, submitted, arxiv.org/abs/2003.05994.
- E. Y. Sidky, P. C. Hansen, J. S. Jørgensen, and X. Pan, Iterative image reconstruction for CT with unmatched projection matrices using the generalized minimal residual algorithm, Proc. SPIE 12304, 7th International Conference on Image Formation in X-Ray Computed Tomography, Article ID 1230406, SPIE (2022), doi 10.1117/12.2646511 (open access).
- E. Tavakkol, Y. Dong, and S.-M. Hosseini, Image denoising via spatially adaptive directional total generalized variation, Iran. J. Sci. Technol. Trans. Sci., 46, pp. 1283-1294 (2022), doi 10.1007/s40995-022-01342-1 (open access).
- F. Uribe, J. M. Bardsley, Y. Dong, P. C. Hansen, and N. A. B. Riis, A hybrid Gibbs sampler for edge-preserving tomographic reconstruction with uncertain angles, SIAM/ASA J. Uncertain. Quantif., 10 (2022), pp. 1293–1320, doi 10.1137/21M1412268.
- F. Uribe, Y. Dong, and P. C. Hansen, Horseshoe priors for edge-preserving linear Bayesian inversion, SIAM J. Sci. Comput., to appear, arXiv.org/abs/2207.09147.
- S. Wang, M. Karamehmedović, and F. Triki, Localization of moving sources: uniqueness, stability, and Bayesian inference, submitted to SIAM J. Appl. Math., arxiv.org/abs/2204.04465.
- R. Warr, E. Ametova, R. J. Cernik, G. Fardell, S. Handschuh, J. S. Jørgensen, E. Papoutsellis, E. Pasca, and P. J. Withers, Enhanced hyperspectral tomography for bioimaging by spatiospectral reconstruction, Sci. Rep. 11 (2021), 20818, doi 10.1038/s41598-021-00146-4.
- S. Yan and Y. Dong, GMM based simultaneous reconstruction and segmentation in X-ray CT application; in A. Elmoataz, J. Fadil, Y. Quéau, J. Rabin, and L. Simon (Eds), Scale Space and Variational Methods in Computer Vision. SSVM 2021, Lecture Notes in Computer Science, vol 12679, pp. 503–515 (2019), Springer, doi 10.1007/978-3-030-75549-2_40.