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Register a new userW2S: Microscopy Data with Joint Denoising and Super-Resolution for Widefield to SIM Mapping
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In fluorescence microscopy live-cell imaging, there is a critical trade-off between the signal-to-noise ratio and spatial resolution on one side, and the integrity of the biological sample on the other side. To obtain clean high-resolution (HR) images, one can either use microscopy techniques, such as structured-illumination microscopy (SIM), or apply denoising and super-resolution (SR) algorithms. However, the former option requires multiple shots that can damage the samples, and although efficient deep learning based algorithms exist for the latter option, no benchmark exists to evaluate these algorithms on the joint denoising and SR (JDSR) tasks. To study JDSR on microscopy data, we propose such a novel JDSR dataset, Widefield2SIM (W2S), acquired using a conventional fluorescence widefield and SIM imaging. W2S includes 144,000 real fluorescence microscopy images, resulting in a total of 360 sets of images. A set is comprised of noisy low-resolution (LR) widefield images with different noise levels, a noise-free LR image, and a corresponding high-quality HR SIM image. W2S allows us to benchmark the combinations of 6 denoising methods and 6 SR methods. We show that state-of-the-art SR networks perform very poorly on noisy inputs. Our evaluation also reveals that applying the best denoiser in terms of reconstruction error followed by the best SR method does not necessarily yield the best final result. Both quantitative and qualitative results show that SR networks are sensitive to noise and the sequential application of denoising and SR algorithms is sub-optimal. Lastly, we demonstrate that SR networks retrained end-to-end for JDSR outperform any combination of state-of-the-art deep denoising and SR networks
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Incomplete color sampling, noise degradation, and limited resolution are the three key problems that are unavoidable in modern camera systems. Demosaicing (DM), denoising (DN), and super-resolution (SR) are core components in a digital image processing pipeline to overcome the three problems above, respectively. Although each of these problems has been studied actively, the mixture problem of DM, DN, and SR, which is a higher practical value, lacks enough attention. Such a mixture problem is usually solved by a sequential solution (applying each method independently in a fixed order: DM $to$ DN $to$ SR), or is simply tackled by an end-to-end network without enough analysis into interactions among tasks, resulting in an undesired performance drop in the final image quality. In this paper, we rethink the mixture problem from a holistic perspective and propose a new image processing pipeline: DN $to$ SR $to$ DM. Extensive experiments show that simply modifying the usual sequential solution by leveraging our proposed pipeline could enhance the image quality by a large margin. We further adopt the proposed pipeline into an end-to-end network, and present Trinity Enhancement Network (TENet). Quantitative and qualitative experiments demonstrate the superiority of our TENet to the state-of-the-art. Besides, we notice the literature lacks a full color sampled dataset. To this end, we contribute a new high-quality full color sampled real-world dataset, namely PixelShift200. Our experiments show the benefit of the proposed PixelShift200 dataset for raw image processing.
We propose a deep reparametrization of the maximum a posteriori formulation commonly employed in multi-frame image restoration tasks. Our approach is derived by introducing a learned error metric and a latent representation of the target image, which transforms the MAP objective to a deep feature space. The deep reparametrization allows us to directly model the image formation process in the latent space, and to integrate learned image priors into the prediction. Our approach thereby leverages the advantages of deep learning, while also benefiting from the principled multi-frame fusion provided by the classical MAP formulation. We validate our approach through comprehensive experiments on burst denoising and burst super-resolution datasets. Our approach sets a new state-of-the-art for both tasks, demonstrating the generality and effectiveness of the proposed formulation.
The core problem of Magnetic Resonance Imaging (MRI) is the trade off between acceleration and image quality. Image reconstruction and super-resolution are two crucial techniques in Magnetic Resonance Imaging (MRI). Current methods are designed to perform these tasks separately, ignoring the correlations between them. In this work, we propose an end-to-end task transformer network (T$^2$Net) for joint MRI reconstruction and super-resolution, which allows representations and feature transmission to be shared between multiple task to achieve higher-quality, super-resolved and motion-artifacts-free images from highly undersampled and degenerated MRI data. Our framework combines both reconstruction and super-resolution, divided into two sub-branches, whose features are expressed as queries and keys. Specifically, we encourage joint feature learning between the two tasks, thereby transferring accurate task information. We first use two separate CNN branches to extract task-specific features. Then, a task transformer module is designed to embed and synthesize the relevance between the two tasks. Experimental results show that our multi-task model significantly outperforms advanced sequential methods, both quantitatively and qualitatively.
In cardiac magnetic resonance (CMR) imaging, a 3D high-resolution segmentation of the heart is essential for detailed description of its anatomical structures. However, due to the limit of acquisition duration and respiratory/cardiac motion, stacks of multi-slice 2D images are acquired in clinical routine. The segmentation of these images provides a low-resolution representation of cardiac anatomy, which may contain artefacts caused by motion. Here we propose a novel latent optimisation framework that jointly performs motion correction and super resolution for cardiac image segmentations. Given a low-resolution segmentation as input, the framework accounts for inter-slice motion in cardiac MR imaging and super-resolves the input into a high-resolution segmentation consistent with input. A multi-view loss is incorporated to leverage information from both short-axis view and long-axis view of cardiac imaging. To solve the inverse problem, iterative optimisation is performed in a latent space, which ensures the anatomical plausibility. This alleviates the need of paired low-resolution and high-resolution images for supervised learning. Experiments on two cardiac MR datasets show that the proposed framework achieves high performance, comparable to state-of-the-art super-resolution approaches and with better cross-domain generalisability and anatomical plausibility.
In real-world single image super-resolution (SISR) task, the low-resolution image suffers more complicated degradations, not only downsampled by unknown kernels. However, existing SISR methods are generally studied with the synthetic low-resolution generation such as bicubic interpolation (BI), which greatly limits their performance. Recently, some researchers investigate real-world SISR from the perspective of the camera and smartphone. However, except the acquisition equipment, the display device also involves more complicated degradations. In this paper, we focus on the camera-screen degradation and build a real-world dataset (Cam-ScreenSR), where HR images are original ground truths from the previous DIV2K dataset and corresponding LR images are camera-captur
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