Daniel M. Pelt

Jiayang Shi, Junyi Zhu, Daniel M. Pelt et al.

Computed Tomography (CT) is pivotal in industrial quality control and medical diagnostics. Sparse-view CT, offering reduced ionizing radiation, faces challenges due to its under-sampled nature, leading to ill-posed reconstruction problems. Recent advancements in Implicit Neural Representations (INRs) have shown promise in addressing sparse-view CT reconstruction. Recognizing that CT often involves scanning similar subjects, we propose a novel approach to improve reconstruction quality through joint reconstruction of multiple objects using INRs. This approach can potentially utilize the advantages of INRs and the common patterns observed across different objects. While current INR joint reconstruction techniques primarily focus on speeding up the learning process, they are not specifically tailored to enhance the final reconstruction quality. To address this gap, we introduce a novel INR-based Bayesian framework integrating latent variables to capture the common patterns across multiple objects under joint reconstruction. The common patterns then assist in the reconstruction of each object via latent variables, thereby improving the individual reconstruction. Extensive experiments demonstrate that our method achieves higher reconstruction quality with sparse views and remains robust to noise in the measurements as indicated by common numerical metrics. The obtained latent variables can also serve as network initialization for the new object and speed up the learning process.

Jiayang Shi, Daniel M. Pelt, K. Joost Batenburg

Computed tomography (CT) is a widely used non-invasive medical imaging technique for disease diagnosis. The diagnostic accuracy is often affected by image resolution, which can be insufficient in practice. For medical CT images, the through-plane resolution is often worse than the in-plane resolution and there can be overlap between slices, causing difficulties in diagnoses. Self-supervised methods for through-plane resolution enhancement, which train on in-plane images and infer on through-plane images, have shown promise for both CT and MRI imaging. However, existing self-supervised methods either neglect overlap or can only handle specific cases with fixed combinations of resolution and overlap. To address these limitations, we propose a self-supervised method called SR4ZCT. It employs the same off-axis training approach while being capable of handling arbitrary combinations of resolution and overlap. Our method explicitly models the relationship between resolutions and voxel spacings of different planes to accurately simulate training images that match the original through-plane images. We highlight the significance of accurate modeling in self-supervised off-axis training and demonstrate the effectiveness of SR4ZCT using a real-world dataset.

Jiayang Shi, Daniel M. Pelt, K. Joost Batenburg

Computed Tomography (CT) using synchrotron radiation is a powerful technique that, compared to lab-CT techniques, boosts high spatial and temporal resolution while also providing access to a range of contrast-formation mechanisms. The acquired projection data is typically processed by a computational pipeline composed of multiple stages. Artifacts introduced during data acquisition can propagate through the pipeline, and degrade image quality in the reconstructed images. Recently, deep learning has shown significant promise in enhancing image quality for images representing scientific data. This success has driven increasing adoption of deep learning techniques in CT imaging. Various approaches have been proposed to incorporate deep learning into computational pipelines, but each has limitations in addressing artifacts effectively and efficiently in synchrotron CT, either in properly addressing the specific artifacts, or in computational efficiency. Recognizing these challenges, we introduce a novel method that incorporates separate deep learning models at each stage of the tomography pipeline-projection, sinogram, and reconstruction-to address specific artifacts locally in a data-driven way. Our approach includes bypass connections that feed both the outputs from previous stages and raw data to subsequent stages, minimizing the risk of error propagation. Extensive evaluations on both simulated and real-world datasets illustrate that our approach effectively reduces artifacts and outperforms comparison methods.

Allard A. Hendriksen, Daniel M. Pelt, K. Joost Batenburg

Recovering a high-quality image from noisy indirect measurements is an important problem with many applications. For such inverse problems, supervised deep convolutional neural network (CNN)-based denoising methods have shown strong results, but the success of these supervised methods critically depends on the availability of a high-quality training dataset of similar measurements. For image denoising, methods are available that enable training without a separate training dataset by assuming that the noise in two different pixels is uncorrelated. However, this assumption does not hold for inverse problems, resulting in artifacts in the denoised images produced by existing methods. Here, we propose Noise2Inverse, a deep CNN-based denoising method for linear image reconstruction algorithms that does not require any additional clean or noisy data. Training a CNN-based denoiser is enabled by exploiting the noise model to compute multiple statistically independent reconstructions. We develop a theoretical framework which shows that such training indeed obtains a denoising CNN, assuming the measured noise is element-wise independent and zero-mean. On simulated CT datasets, Noise2Inverse demonstrates an improvement in peak signal-to-noise ratio and structural similarity index compared to state-of-the-art image denoising methods and conventional reconstruction methods, such as Total-Variation Minimization. We also demonstrate that the method is able to significantly reduce noise in challenging real-world experimental datasets.