arXiv subjects

Ozan Öktem

Publications and source records attributed to Ozan Öktem.

45 records · Page 3Linked to original sources

arXiv2018

A New Variational Model for Joint Image Reconstruction and Motion Estimation in Spatiotemporal Imaging

We propose a new variational model for joint image reconstruction and motion estimation in spatiotemporal imaging, which is investigated along a general framework that we present with shape theory. This model consists of two components, one for conducting modified static image reconstruction, and the other performs sequentially indirect image registration. For the latter, we generalize the large deformation diffeomorphic metric mapping framework into the sequentially indirect registration setting. The proposed model is compared theoretically against alternative approaches (optical flow based model and diffeomorphic motion models), and we demonstrate that the proposed model has desirable properties in terms of the optimal solution. The theoretical derivations and efficient algorithms are also presented for a time-discretized scenario of the proposed model, which show that the optimal solution of the time-discretized version is consistent with that of the time-continuous one, and most of the computational components is the easy-implemented linearized deformation. The complexity of the algorithm is analyzed as well. This work is concluded by some numerical examples in 2D space + time tomography with very sparse and/or highly noisy data.

math.NA↗

arXiv2018

Deep Bayesian Inversion

Characterizing statistical properties of solutions of inverse problems is essential for decision making. Bayesian inversion offers a tractable framework for this purpose, but current approaches are computationally unfeasible for most realistic imaging applications in the clinic. We introduce two novel deep learning based methods for solving large-scale inverse problems using Bayesian inversion: a sampling based method using a WGAN with a novel mini-discriminator and a direct approach that trains a neural network using a novel loss function. The performance of both methods is demonstrated on image reconstruction in ultra low dose 3D helical CT. We compute the posterior mean and standard deviation of the 3D images followed by a hypothesis test to assess whether a "dark spot" in the liver of a cancer stricken patient is present. Both methods are computationally efficient and our evaluation shows very promising performance that clearly supports the claim that Bayesian inversion is usable for 3D imaging in time critical applications.

stat.ML↗

arXiv2018

Task adapted reconstruction for inverse problems

The paper considers the problem of performing a task defined on a model parameter that is only observed indirectly through noisy data in an ill-posed inverse problem. A key aspect is to formalize the steps of reconstruction and task as appropriate estimators (non-randomized decision rules) in statistical estimation problems. The implementation makes use of (deep) neural networks to provide a differentiable parametrization of the family of estimators for both steps. These networks are combined and jointly trained against suitable supervised training data in order to minimize a joint differentiable loss function, resulting in an end-to-end task adapted reconstruction method. The suggested framework is generic, yet adaptable, with a plug-and-play structure for adjusting both the inverse problem and the task at hand. More precisely, the data model (forward operator and statistical model of the noise) associated with the inverse problem is exchangeable, e.g., by using neural network architecture given by a learned iterative method. Furthermore, any task that is encodable as a trainable neural network can be used. The approach is demonstrated on joint tomographic image reconstruction, classification and joint tomographic image reconstruction segmentation.

cs.CV↗

arXiv2018

Data-driven nonsmooth optimization

In this work, we consider methods for solving large-scale optimization problems with a possibly nonsmooth objective function. The key idea is to first specify a class of optimization algorithms using a generic iterative scheme involving only linear operations and applications of proximal operators. This scheme contains many modern primal-dual first-order solvers like the Douglas-Rachford and hybrid gradient methods as special cases. Moreover, we show convergence to an optimal point for a new method which also belongs to this class. Next, we interpret the generic scheme as a neural network and use unsupervised training to learn the best set of parameters for a specific class of objective functions while imposing a fixed number of iterations. In contrast to other approaches of "learning to optimize", we present an approach which learns parameters only in the set of convergent schemes. As use cases, we consider optimization problems arising in tomographic reconstruction and image deconvolution, and in particular a family of total variation regularization problems.

math.OC↗

arXiv2018

Learned Primal-dual Reconstruction

We propose the Learned Primal-Dual algorithm for tomographic reconstruction. The algorithm accounts for a (possibly non-linear) forward operator in a deep neural network by unrolling a proximal primal-dual optimization method, but where the proximal operators have been replaced with convolutional neural networks. The algorithm is trained end-to-end, working directly from raw measured data and it does not depend on any initial reconstruction such as FBP. We compare performance of the proposed method on low dose CT reconstruction against FBP, TV, and deep learning based post-processing of FBP. For the Shepp-Logan phantom we obtain >6dB PSNR improvement against all compared methods. For human phantoms the corresponding improvement is 6.6dB over TV and 2.2dB over learned post-processing along with a substantial improvement in the SSIM. Finally, our algorithm involves only ten forward-back-projection computations, making the method feasible for time critical clinical applications.

math.OC↗

arXiv2017

Learning to solve inverse problems using Wasserstein loss

We propose using the Wasserstein loss for training in inverse problems. In particular, we consider a learned primal-dual reconstruction scheme for ill-posed inverse problems using the Wasserstein distance as loss function in the learning. This is motivated by miss-alignments in training data, which when using standard mean squared error loss could severely degrade reconstruction quality. We prove that training with the Wasserstein loss gives a reconstruction operator that correctly compensates for miss-alignments in certain cases, whereas training with the mean squared error gives a smeared reconstruction. Moreover, we demonstrate these effects by training a reconstruction algorithm using both mean squared error and optimal transport loss for a problem in computerized tomography.

cs.CV↗

arXiv2017

Indirect Image Registration with Large Diffeomorphic Deformations

The paper adapts the large deformation diffeomorphic metric mapping framework for image registration to the indirect setting where a template is registered against a target that is given through indirect noisy observations. The registration uses diffeomorphisms that transform the template through a (group) action. These diffeomorphisms are generated by solving a flow equation that is defined by a velocity field with certain regularity. The theoretical analysis includes a proof that indirect image registration has solutions (existence) that are stable and that converge as the data error tends so zero, so it becomes a well-defined regularization method. The paper concludes with examples of indirect image registration in 2D tomography with very sparse and/or highly noisy data.

math.NA↗

arXiv2017

Solving ill-posed inverse problems using iterative deep neural networks

We propose a partially learned approach for the solution of ill posed inverse problems with not necessarily linear forward operators. The method builds on ideas from classical regularization theory and recent advances in deep learning to perform learning while making use of prior information about the inverse problem encoded in the forward operator, noise model and a regularizing functional. The method results in a gradient-like iterative scheme, where the "gradient" component is learned using a convolutional network that includes the gradients of the data discrepancy and regularizer as input in each iteration. We present results of such a partially learned gradient scheme on a non-linear tomographic inversion problem with simulated data from both the Sheep-Logan phantom as well as a head CT. The outcome is compared against FBP and TV reconstruction and the proposed method provides a 5.4 dB PSNR improvement over the TV reconstruction while being significantly faster, giving reconstructions of 512 x 512 volumes in about 0.4 seconds using a single GPU.

math.OC↗

arXiv2017

Tunable Ampere phase plate for low dose imaging of biomolecular complexes

A novel device that can be used as a tunable support-free phase plate for transmission electron microscopy of weakly scattering specimens is described. The device relies on the generation of a controlled phase shift by the magnetic field of a segment of current-carrying wire that is oriented parallel or antiparallel to the electron beam. The validity of the concept is established using both experimental electron holographic measurements and a theoretical model based on Ampere's law. Computer simulations are used to illustrate the resulting contrast enhancement for studies of biological cells and macromolecules.

physics.ins-det↗