Daily Papers

Correlative computational microscopy is accelerating the mapping of dynamic biological systems by integrating morphological and molecular measurements across spatial scales, from organelles to entire organisms. Visualization, measurement, and prediction of interactions among the components of biological systems can be accelerated by generalist computational imaging frameworks that relax the trade-offs imposed by multiplex dynamic imaging. This work reports a generalist framework for wave optical imaging of the architectural order (waveOrder) among biomolecules for encoding and decoding multiple specimen properties from a minimal set of acquired channels, with or without fluorescent labels. waveOrder expresses material properties in terms of elegant physically motivated basis vectors directly interpretable as phase, absorption, birefringence, diattenuation, and fluorophore density; and it expresses image data in terms of directly measurable Stokes parameters. We report a corresponding multi-channel reconstruction algorithm to recover specimen properties in multiple contrast modes. With this framework, we implement multiple 3D computational microscopy methods, including quantitative phase imaging, quantitative label-free imaging with phase and polarization, and fluorescence deconvolution imaging, across scales ranging from organelles to whole zebrafish. These advances are available via an extensible open-source computational imaging library, waveOrder, and a napari plugin, recOrder.

Inverse problems in image reconstruction are fundamentally complicated by unknown noise properties. Classical iterative deconvolution approaches amplify noise and require careful parameter selection for an optimal trade-off between sharpness and grain. Deep learning methods allow for flexible parametrization of the noise and learning its properties directly from the data. Recently, self-supervised blind-spot neural networks were successfully adopted for image deconvolution by including a known point-spread function in the end-to-end training. However, their practical application has been limited to 2D images in the biomedical domain because it implies large kernels that are poorly optimized. We tackle this problem with Fast Fourier Transform convolutions that provide training speed-up in 3D microscopy deconvolution tasks. Further, we propose to adopt a Siamese invariance loss for deconvolution and empirically identify its optimal position in the neural network between blind-spot and full image branches. The experimental results show that our improved framework outperforms the previous state-of-the-art deconvolution methods with a known point spread function.

Fluorescence Lifetime Imaging (FLI) is a critical molecular imaging modality that provides unique information about the tissue microenvironment, which is invaluable for biomedical applications. FLI operates by acquiring and analyzing photon time-of-arrival histograms to extract quantitative parameters associated with temporal fluorescence decay. These histograms are influenced by the intrinsic properties of the fluorophore, instrument parameters, time-of-flight distributions associated with pixel-wise variations in the topographic and optical characteristics of the sample. Recent advancements in Deep Learning (DL) have enabled improved fluorescence lifetime parameter estimation. However, existing models are primarily designed for planar surface samples, limiting their applicability in translational scenarios involving complex surface profiles, such as in-vivo whole-animal or imaged guided surgical applications. To address this limitation, we present MFliNet (Macroscopic FLI Network), a novel DL architecture that integrates the Instrument Response Function (IRF) as an additional input alongside experimental photon time-of-arrival histograms. Leveraging the capabilities of a Differential Transformer encoder-decoder architecture, MFliNet effectively focuses on critical input features, such as variations in photon time-of-arrival distributions. We evaluate MFliNet using rigorously designed tissue-mimicking phantoms and preclinical in-vivo cancer xenograft models. Our results demonstrate the model's robustness and suitability for complex macroscopic FLI applications, offering new opportunities for advanced biomedical imaging in diverse and challenging settings.

Most existing learning-based methods for solving imaging inverse problems can be roughly divided into two classes: iterative algorithms, such as plug-and-play and diffusion methods, that leverage pretrained denoisers, and unrolled architectures that are trained end-to-end for specific imaging problems. Iterative methods in the first class are computationally costly and often provide suboptimal reconstruction performance, whereas unrolled architectures are generally specific to a single inverse problem and require expensive training. In this work, we propose a novel non-iterative, lightweight architecture that incorporates knowledge about the forward operator (acquisition physics and noise parameters) without relying on unrolling. Our model is trained to solve a wide range of inverse problems beyond denoising, including deblurring, magnetic resonance imaging, computed tomography, inpainting, and super-resolution. The proposed model can be easily adapted to unseen inverse problems or datasets with a few fine-tuning steps (up to a few images) in a self-supervised way, without ground-truth references. Throughout a series of experiments, we demonstrate state-of-the-art performance from medical imaging to low-photon imaging and microscopy.

With the onset of large-scale astronomical surveys capturing millions of images, there is an increasing need to develop fast and accurate deconvolution algorithms that generalize well to different images. A powerful and accessible deconvolution method would allow for the reconstruction of a cleaner estimation of the sky. The deconvolved images would be helpful to perform photometric measurements to help make progress in the fields of galaxy formation and evolution. We propose a new deconvolution method based on the Learnlet transform. Eventually, we investigate and compare the performance of different Unet architectures and Learnlet for image deconvolution in the astrophysical domain by following a two-step approach: a Tikhonov deconvolution with a closed-form solution, followed by post-processing with a neural network. To generate our training dataset, we extract HST cutouts from the CANDELS survey in the F606W filter (V-band) and corrupt these images to simulate their blurred-noisy versions. Our numerical results based on these simulations show a detailed comparison between the considered methods for different noise levels.

With the advent of surveys like Euclid and Vera C. Rubin, astrophysicists will have access to both deep, high-resolution images and multiband images. However, these two types are not simultaneously available in any single dataset. It is therefore vital to devise image deconvolution algorithms that exploit the best of both worlds and that can jointly analyze datasets spanning a range of resolutions and wavelengths. In this work we introduce a novel multiband deconvolution technique aimed at improving the resolution of ground-based astronomical images by leveraging higher-resolution space-based observations. The method capitalizes on the fortunate fact that the Rubin r, i, and z bands lie within the Euclid VIS band. The algorithm jointly de-convolves all the data to convert the r-, i-, and z-band Rubin images to the resolution of Euclid by leveraging the correlations between the different bands. We also investigate the performance of deep-learning-based denoising with DRUNet to further improve the results. We illustrate the effectiveness of our method in terms of resolution and morphology recovery, flux preservation, and generalization to different noise levels. This approach extends beyond the specific Euclid-Rubin combination, offering a versatile solution to improving the resolution of ground-based images in multiple photometric bands by jointly using any space-based images with overlapping filters.

Fluorescence LiDAR (FLiDAR), a Light Detection and Ranging (LiDAR) technology employed for distance and depth estimation across medical, automotive, and other fields, encounters significant computational challenges in scattering media. The complex nature of the acquired FLiDAR signal, particularly in such environments, makes isolating photon time-of-flight (related to target depth) and intrinsic fluorescence lifetime exceptionally difficult, thus limiting the effectiveness of current analytical and computational methodologies. To overcome this limitation, we present a Physics-Guided Mixture-of-Experts (MoE) framework tailored for specialized modeling of diverse temporal components. In contrast to the conventional MoE approaches our expert models are informed by underlying physics, such as the radiative transport equation governing photon propagation in scattering media. Central to our approach is EvidenceMoE, which integrates Evidence-Based Dirichlet Critics (EDCs). These critic models assess the reliability of each expert's output by providing per-expert quality scores and corrective feedback. A Decider Network then leverages this information to fuse expert predictions into a robust final estimate adaptively. We validate our method using realistically simulated Fluorescence LiDAR (FLiDAR) data for non-invasive cancer cell depth detection generated from photon transport models in tissue. Our framework demonstrates strong performance, achieving a normalized root mean squared error (NRMSE) of 0.030 for depth estimation and 0.074 for fluorescence lifetime.

As ground-based all-sky astronomical surveys will gather millions of images in the coming years, a critical requirement emerges for the development of fast deconvolution algorithms capable of efficiently improving the spatial resolution of these images. By successfully recovering clean and high-resolution images from these surveys, the objective is to deepen the understanding of galaxy formation and evolution through accurate photometric measurements. We introduce a two-step deconvolution framework using a Swin Transformer architecture. Our study reveals that the deep learning-based solution introduces a bias, constraining the scope of scientific analysis. To address this limitation, we propose a novel third step relying on the active coefficients in the sparsity wavelet framework. We conducted a performance comparison between our deep learning-based method and Firedec, a classical deconvolution algorithm, based on an analysis of a subset of the EDisCS cluster samples. We demonstrate the advantage of our method in terms of resolution recovery, generalisation to different noise properties, and computational efficiency. The analysis of this cluster sample not only allowed us to assess the efficiency of our method, but it also enabled us to quantify the number of clumps within these galaxies in relation to their disc colour. This robust technique that we propose holds promise for identifying structures in the distant universe through ground-based images.

Under low-light environment, handheld photography suffers from severe camera shake under long exposure settings. Although existing deblurring algorithms have shown promising performance on well-exposed blurry images, they still cannot cope with low-light snapshots. Sophisticated noise and saturation regions are two dominating challenges in practical low-light deblurring. In this work, we propose a novel non-blind deblurring method dubbed image and feature space Wiener deconvolution network (INFWIDE) to tackle these problems systematically. In terms of algorithm design, INFWIDE proposes a two-branch architecture, which explicitly removes noise and hallucinates saturated regions in the image space and suppresses ringing artifacts in the feature space, and integrates the two complementary outputs with a subtle multi-scale fusion network for high quality night photograph deblurring. For effective network training, we design a set of loss functions integrating a forward imaging model and backward reconstruction to form a close-loop regularization to secure good convergence of the deep neural network. Further, to optimize INFWIDE's applicability in real low-light conditions, a physical-process-based low-light noise model is employed to synthesize realistic noisy night photographs for model training. Taking advantage of the traditional Wiener deconvolution algorithm's physically driven characteristics and arisen deep neural network's representation ability, INFWIDE can recover fine details while suppressing the unpleasant artifacts during deblurring. Extensive experiments on synthetic data and real data demonstrate the superior performance of the proposed approach.

Blind image deconvolution (BID) is a classic yet challenging problem in the field of image processing. Recent advances in deep image prior (DIP) have motivated a series of DIP-based approaches, demonstrating remarkable success in BID. However, due to the high non-convexity of the inherent optimization process, these methods are notorious for their sensitivity to the initialized kernel. To alleviate this issue and further improve their performance, we propose a new framework for BID that better considers the prior modeling and the initialization for blur kernels, leveraging a deep generative model. The proposed approach pre-trains a generative adversarial network-based kernel generator that aptly characterizes the kernel priors and a kernel initializer that facilitates a well-informed initialization for the blur kernel through latent space encoding. With the pre-trained kernel generator and initializer, one can obtain a high-quality initialization of the blur kernel, and enable optimization within a compact latent kernel manifold. Such a framework results in an evident performance improvement over existing DIP-based BID methods. Extensive experiments on different datasets demonstrate the effectiveness of the proposed method.

Breast-conserving surgery (BCS) aims to completely remove malignant lesions while maximizing healthy tissue preservation. Intraoperative margin assessment is essential to achieve a balance between thorough cancer resection and tissue conservation. A deep ultraviolet fluorescence scanning microscope (DUV-FSM) enables rapid acquisition of whole surface images (WSIs) for excised tissue, providing contrast between malignant and normal tissues. However, breast cancer classification with DUV WSIs is challenged by high resolutions and complex histopathological features. This study introduces a DUV WSI classification framework using a patch-level vision transformer (ViT) model, capturing local and global features. Grad-CAM++ saliency weighting highlights relevant spatial regions, enhances result interpretability, and improves diagnostic accuracy for benign and malignant tissue classification. A comprehensive 5-fold cross-validation demonstrates the proposed approach significantly outperforms conventional deep learning methods, achieving a classification accuracy of 98.33%.

Diffusion models have achieved remarkable success in imaging inverse problems owing to their powerful generative capabilities. However, existing approaches typically rely on models trained for specific degradation types, limiting their generalizability to various degradation scenarios. To address this limitation, we propose a zero-shot framework capable of handling various imaging inverse problems without model retraining. We introduce a likelihood-guided noise refinement mechanism that derives a closed-form approximation of the likelihood score, simplifying score estimation and avoiding expensive gradient computations. This estimated score is subsequently utilized to refine the model-predicted noise, thereby better aligning the restoration process with the generative framework of diffusion models. In addition, we integrate the Denoising Diffusion Implicit Models (DDIM) sampling strategy to further improve inference efficiency. The proposed mechanism can be applied to both optimization-based and sampling-based schemes, providing an effective and flexible zero-shot solution for imaging inverse problems. Extensive experiments demonstrate that our method achieves superior performance across multiple inverse problems, particularly in compressive sensing, delivering high-quality reconstructions even at an extremely low sampling rate (5%).

Dynamic imaging addresses the recovery of a time-varying 2D or 3D object at each time instant using its undersampled measurements. In particular, in the case of dynamic tomography, only a single projection at a single view angle may be available at a time, making the problem severely ill-posed. In this work, we propose an approach, RED-PSM, which combines for the first time two powerful techniques to address this challenging imaging problem. The first, are partially separable models, which have been used to efficiently introduce a low-rank prior for the spatio-temporal object. The second is the recent Regularization by Denoising (RED), which provides a flexible framework to exploit the impressive performance of state-of-the-art image denoising algorithms, for various inverse problems. We propose a partially separable objective with RED and a computationally efficient and scalable optimization scheme with variable splitting and ADMM. Theoretical analysis proves the convergence of our objective to a value corresponding to a stationary point satisfying the first-order optimality conditions. Convergence is accelerated by a particular projection-domain-based initialization. We demonstrate the performance and computational improvements of our proposed RED-PSM with a learned image denoiser by comparing it to a recent deep-prior-based method known as TD-DIP. Although the main focus is on dynamic tomography, we also show the performance advantages of RED-PSM in a cardiac dynamic MRI setting.

Echocardiography has been a prominent tool for the diagnosis of cardiac disease. However, these diagnoses can be heavily impeded by poor image quality. Acoustic clutter emerges due to multipath reflections imposed by layers of skin, subcutaneous fat, and intercostal muscle between the transducer and heart. As a result, haze and other noise artifacts pose a real challenge to cardiac ultrasound imaging. In many cases, especially with difficult-to-image patients such as patients with obesity, a diagnosis from B-Mode ultrasound imaging is effectively rendered unusable, forcing sonographers to resort to contrast-enhanced ultrasound examinations or refer patients to other imaging modalities. Tissue harmonic imaging has been a popular approach to combat haze, but in severe cases is still heavily impacted by haze. Alternatively, denoising algorithms are typically unable to remove highly structured and correlated noise, such as haze. It remains a challenge to accurately describe the statistical properties of structured haze, and develop an inference method to subsequently remove it. Diffusion models have emerged as powerful generative models and have shown their effectiveness in a variety of inverse problems. In this work, we present a joint posterior sampling framework that combines two separate diffusion models to model the distribution of both clean ultrasound and haze in an unsupervised manner. Furthermore, we demonstrate techniques for effectively training diffusion models on radio-frequency ultrasound data and highlight the advantages over image data. Experiments on both in-vitro and in-vivo cardiac datasets show that the proposed dehazing method effectively removes haze while preserving signals from weakly reflected tissue.

MRI is an indispensable clinical tool, offering a rich variety of tissue contrasts to support broad diagnostic and research applications. Clinical exams routinely acquire multiple structural sequences that provide complementary information for differential diagnosis, while research protocols often incorporate advanced functional, diffusion, spectroscopic, and relaxometry sequences to capture multidimensional insights into tissue structure and composition. However, these capabilities come at the cost of prolonged scan times, which reduce patient throughput, increase susceptibility to motion artifacts, and may require trade-offs in image quality or diagnostic scope. Over the last two decades, advances in image reconstruction algorithms--alongside improvements in hardware and pulse sequence design--have made it possible to accelerate acquisitions while preserving diagnostic quality. Central to this progress is the ability to incorporate prior information to regularize the solutions to the reconstruction problem. In this tutorial, we overview the basics of MRI reconstruction and highlight state-of-the-art approaches, beginning with classical methods that rely on explicit hand-crafted priors, and then turning to deep learning methods that leverage a combination of learned and crafted priors to further push the performance envelope. We also explore the translational aspects and eventual clinical implications of these methods. We conclude by discussing future directions to address remaining challenges in MRI reconstruction. The tutorial is accompanied by a Python toolbox (https://github.com/tutorial-MRI-recon/tutorial) to demonstrate select methods discussed in the article.

Confocal fluorescence microscopy is one of the most accessible and widely used imaging techniques for the study of biological processes. Scanning confocal microscopy allows the capture of high-quality images from 3D samples, yet suffers from well-known limitations such as photobleaching and phototoxicity of specimens caused by intense light exposure, which limits its use in some applications, especially for living cells. Cellular damage can be alleviated by changing imaging parameters to reduce light exposure, often at the expense of image quality. Machine/deep learning methods for single-image super-resolution (SISR) can be applied to restore image quality by upscaling lower-resolution (LR) images to produce high-resolution images (HR). These SISR methods have been successfully applied to photo-realistic images due partly to the abundance of publicly available data. In contrast, the lack of publicly available data partly limits their application and success in scanning confocal microscopy. In this paper, we introduce a large scanning confocal microscopy dataset named SR-CACO-2 that is comprised of low- and high-resolution image pairs marked for three different fluorescent markers. It allows the evaluation of performance of SISR methods on three different upscaling levels (X2, X4, X8). SR-CACO-2 contains the human epithelial cell line Caco-2 (ATCC HTB-37), and it is composed of 22 tiles that have been translated in the form of 9,937 image patches for experiments with SISR methods. Given the new SR-CACO-2 dataset, we also provide benchmarking results for 15 state-of-the-art methods that are representative of the main SISR families. Results show that these methods have limited success in producing high-resolution textures, indicating that SR-CACO-2 represents a challenging problem. Our dataset, code and pretrained weights are available: https://github.com/sbelharbi/sr-caco-2.

We present an ultra-fast, precise, parameter-free method, which we term Deep-STORM, for obtaining super-resolution images from stochastically-blinking emitters, such as fluorescent molecules used for localization microscopy. Deep-STORM uses a deep convolutional neural network that can be trained on simulated data or experimental measurements, both of which are demonstrated. The method achieves state-of-the-art resolution under challenging signal-to-noise conditions and high emitter densities, and is significantly faster than existing approaches. Additionally, no prior information on the shape of the underlying structure is required, making the method applicable to any blinking data-set. We validate our approach by super-resolution image reconstruction of simulated and experimentally obtained data.

Relightable object acquisition is a key challenge in simplifying digital asset creation. Complete reconstruction of an object typically requires capturing hundreds to thousands of photographs under controlled illumination, with specialized equipment. The recent progress in differentiable rendering improved the quality and accessibility of inverse rendering optimization. Nevertheless, under uncontrolled illumination and unstructured viewpoints, there is no guarantee that the observations contain enough information to reconstruct the appearance properties of the captured object. We thus propose to consider the acquisition process from a signal-processing perspective. Given an object's geometry and a lighting environment, we estimate the properties of the materials on the object's surface in seconds. We do so by leveraging frequency domain analysis, considering the recovery of material properties as a deconvolution, enabling fast error estimation. We then quantify the uncertainty of the estimation, based on the available data, highlighting the areas for which priors or additional samples would be required for improved acquisition quality. We compare our approach to previous work and quantitatively evaluate our results, showing similar quality as previous work in a fraction of the time, and providing key information about the certainty of the results.

Radio interferometric imaging aims to estimate an unknown sky intensity image from degraded observations, acquired through an antenna array. In the theoretical case of a perfectly calibrated array, it has been shown that solving the corresponding imaging problem by iterative algorithms based on convex optimization and compressive sensing theory can be competitive with classical algorithms such as CLEAN. However, in practice, antenna-based gains are unknown and have to be calibrated. Future radio telescopes, such as the SKA, aim at improving imaging resolution and sensitivity by orders of magnitude. At this precision level, the direction-dependency of the gains must be accounted for, and radio interferometric imaging can be understood as a blind deconvolution problem. In this context, the underlying minimization problem is non-convex, and adapted techniques have to be designed. In this work, leveraging recent developments in non-convex optimization, we propose the first joint calibration and imaging method in radio interferometry, with proven convergence guarantees. Our approach, based on a block-coordinate forward-backward algorithm, jointly accounts for visibilities and suitable priors on both the image and the direction-dependent effects (DDEs). As demonstrated in recent works, sparsity remains the prior of choice for the image, while DDEs are modelled as smooth functions of the sky, i.e. spatially band-limited. Finally, we show through simulations the efficiency of our method, for the reconstruction of both images of point sources and complex extended sources. MATLAB code is available on GitHub.

High-resolution (HR) magnetic resonance imaging (MRI) is crucial for many clinical and research applications. However, achieving it remains costly and constrained by technical trade-offs and experimental limitations. Super-resolution (SR) presents a promising computational approach to overcome these challenges by generating HR images from more affordable low-resolution (LR) scans, potentially improving diagnostic accuracy and efficiency without requiring additional hardware. This survey reviews recent advances in MRI SR techniques, with a focus on deep learning (DL) approaches. It examines DL-based MRI SR methods from the perspectives of computer vision, computational imaging, inverse problems, and MR physics, covering theoretical foundations, architectural designs, learning strategies, benchmark datasets, and performance metrics. We propose a systematic taxonomy to categorize these methods and present an in-depth study of both established and emerging SR techniques applicable to MRI, considering unique challenges in clinical and research contexts. We also highlight open challenges and directions that the community needs to address. Additionally, we provide a collection of essential open-access resources, tools, and tutorials, available on our GitHub: https://github.com/mkhateri/Awesome-MRI-Super-Resolution. IEEE keywords: MRI, Super-Resolution, Deep Learning, Computational Imaging, Inverse Problem, Survey.

Computational imaging methods increasingly rely on powerful generative diffusion models to tackle challenging image restoration tasks. In particular, state-of-the-art zero-shot image inverse solvers leverage distilled text-to-image latent diffusion models (LDMs) to achieve unprecedented accuracy and perceptual quality with high computational efficiency. However, extending these advances to high-definition video restoration remains a significant challenge, due to the need to recover fine spatial detail while capturing subtle temporal dependencies. Consequently, methods that naively apply image-based LDM priors on a frame-by-frame basis often result in temporally inconsistent reconstructions. We address this challenge by leveraging recent advances in Video Consistency Models (VCMs), which distill video latent diffusion models into fast generators that explicitly capture temporal causality. Building on this foundation, we propose LVTINO, the first zero-shot or plug-and-play inverse solver for high definition video restoration with priors encoded by VCMs. Our conditioning mechanism bypasses the need for automatic differentiation and achieves state-of-the-art video reconstruction quality with only a few neural function evaluations, while ensuring strong measurement consistency and smooth temporal transitions across frames. Extensive experiments on a diverse set of video inverse problems show significant perceptual improvements over current state-of-the-art methods that apply image LDMs frame by frame, establishing a new benchmark in both reconstruction fidelity and computational efficiency.

In this paper we consider the problem of acoustic inversion in the context of the optoacoustic tomography image reconstruction problem. By leveraging the ability of the recently proposed diffusion models for image generative tasks among others, we devise an image reconstruction architecture based on a conditional diffusion process. The scheme makes use of an initial image reconstruction, which is preprocessed by an autoencoder to generate an adequate representation. This representation is used as conditional information in a generative diffusion process. Although the computational requirements for training and implementing the architecture are not low, several design choices discussed in the work were made to keep them manageable. Numerical results show that the conditional information allows to properly bias the parameters of the diffusion model to improve the quality of the initial reconstructed image, eliminating artifacts or even reconstructing finer details of the ground-truth image that are not recoverable by the initial image reconstruction method. We also tested the proposal under experimental conditions and the obtained results were in line with those corresponding to the numerical simulations. Improvements in image quality up to 17 % in terms of peak signal-to-noise ratio were observed.

Removing optical and atmospheric blur from galaxy images significantly improves galaxy shape measurements for weak gravitational lensing and galaxy evolution studies. This ill-posed linear inverse problem is usually solved with deconvolution algorithms enhanced by regularisation priors or deep learning. We introduce a so-called "physics-informed deep learning" approach to the Point Spread Function (PSF) deconvolution problem in galaxy surveys. We apply algorithm unrolling and the Plug-and-Play technique to the Alternating Direction Method of Multipliers (ADMM), in which a neural network learns appropriate hyperparameters and denoising priors from simulated galaxy images. We characterise the time-performance trade-off of several methods for galaxies of differing brightness levels as well as our method's robustness to systematic PSF errors and network ablations. We show an improvement in reduced shear ellipticity error of 38.6% (SNR=20)/45.0% (SNR=200) compared to classic methods and 7.4% (SNR=20)/33.2% (SNR=200) compared to modern methods.

Traditional fluorescence staining is phototoxic to live cells, slow, and expensive; thus, the subcellular structure prediction (SSP) from transmitted light (TL) images is emerging as a label-free, faster, low-cost alternative. However, existing approaches utilize 3D networks for one-to-one voxel level dense prediction, which necessitates a frequent and time-consuming Z-axis imaging process. Moreover, 3D convolutions inevitably lead to significant computation and GPU memory overhead. Therefore, we propose an efficient framework, SparseSSP, predicting fluorescent intensities within the target voxel grid in an efficient paradigm instead of relying entirely on 3D topologies. In particular, SparseSSP makes two pivotal improvements to prior works. First, SparseSSP introduces a one-to-many voxel mapping paradigm, which permits the sparse TL slices to reconstruct the subcellular structure. Secondly, we propose a hybrid dimensions topology, which folds the Z-axis information into channel features, enabling the 2D network layers to tackle SSP under low computational cost. We conduct extensive experiments to validate the effectiveness and advantages of SparseSSP on diverse sparse imaging ratios, and our approach achieves a leading performance compared to pure 3D topologies. SparseSSP reduces imaging frequencies compared to previous dense-view SSP (i.e., the number of imaging is reduced up to 87.5% at most), which is significant in visualizing rapid biological dynamics on low-cost devices and samples.

With applications ranging from metabolomics to histopathology, quantitative phase microscopy (QPM) is a powerful label-free imaging modality. Despite significant advances in fast multiplexed imaging sensors and deep-learning-based inverse solvers, the throughput of QPM is currently limited by the speed of electronic hardware. Complementarily, to improve throughput further, here we propose to acquire images in a compressed form such that more information can be transferred beyond the existing electronic hardware bottleneck. To this end, we present a learnable optical compression-decompression framework that learns content-specific features. The proposed differentiable quantitative phase microscopy (partial mu) first uses learnable optical feature extractors as image compressors. The intensity representation produced by these networks is then captured by the imaging sensor. Finally, a reconstruction network running on electronic hardware decompresses the QPM images. In numerical experiments, the proposed system achieves compression of times 64 while maintaining the SSIM of sim 0.90 and PSNR of sim 30 dB on cells. The results demonstrated by our experiments open up a new pathway for achieving end-to-end optimized (i.e., optics and electronic) compact QPM systems that may provide unprecedented throughput improvements.

Recent diffusion-based generative models achieve remarkable results by training on massive datasets, yet this practice raises concerns about memorization and copyright infringement. A proposed remedy is to train exclusively on noisy data with potential copyright issues, ensuring the model never observes original content. However, through the lens of deconvolution theory, we show that although it is theoretically feasible to learn the data distribution from noisy samples, the practical challenge of collecting sufficient samples makes successful learning nearly unattainable. To overcome this limitation, we propose to pretrain the model with a small fraction of clean data to guide the deconvolution process. Combined with our Stochastic Forward--Backward Deconvolution (SFBD) method, we attain FID 6.31 on CIFAR-10 with just 4% clean images (and 3.58 with 10%). We also provide theoretical guarantees that SFBD learns the true data distribution. These results underscore the value of limited clean pretraining, or pretraining on similar datasets. Empirical studies further validate and enrich our findings.

In biological research, fluorescence staining is a key technique to reveal the locations and morphology of subcellular structures. However, it is slow, expensive, and harmful to cells. In this paper, we model it as a deep learning task termed subcellular structure prediction (SSP), aiming to predict the 3D fluorescent images of multiple subcellular structures from a 3D transmitted-light image. Unfortunately, due to the limitations of current biotechnology, each image is partially labeled in SSP. Besides, naturally, subcellular structures vary considerably in size, which causes the multi-scale issue of SSP. To overcome these challenges, we propose Re-parameterizing Mixture-of-Diverse-Experts (RepMode), a network that dynamically organizes its parameters with task-aware priors to handle specified single-label prediction tasks. In RepMode, the Mixture-of-Diverse-Experts (MoDE) block is designed to learn the generalized parameters for all tasks, and gating re-parameterization (GatRep) is performed to generate the specialized parameters for each task, by which RepMode can maintain a compact practical topology exactly like a plain network, and meanwhile achieves a powerful theoretical topology. Comprehensive experiments show that RepMode can achieve state-of-the-art overall performance in SSP.

This study presents a new image super-resolution (SR) technique based on diffusion inversion, aiming at harnessing the rich image priors encapsulated in large pre-trained diffusion models to improve SR performance. We design a Partial noise Prediction strategy to construct an intermediate state of the diffusion model, which serves as the starting sampling point. Central to our approach is a deep noise predictor to estimate the optimal noise maps for the forward diffusion process. Once trained, this noise predictor can be used to initialize the sampling process partially along the diffusion trajectory, generating the desirable high-resolution result. Compared to existing approaches, our method offers a flexible and efficient sampling mechanism that supports an arbitrary number of sampling steps, ranging from one to five. Even with a single sampling step, our method demonstrates superior or comparable performance to recent state-of-the-art approaches. The code and model are publicly available at https://github.com/zsyOAOA/InvSR.

Fluorescence labeling is the standard approach to reveal cellular structures and other subcellular constituents for microscopy images. However, this invasive procedure may perturb or even kill the cells and the procedure itself is highly time-consuming and complex. Recently, in silico labeling has emerged as a promising alternative, aiming to use machine learning models to directly predict the fluorescently labeled images from label-free microscopy. In this paper, we propose a deep learning-based in silico labeling method for the Light My Cells challenge. Built upon pix2pix, our proposed method can be trained using the partially labeled datasets with an adaptive loss. Moreover, we explore the effectiveness of several training strategies to handle different input modalities, such as training them together or separately. The results show that our method achieves promising performance for in silico labeling. Our code is available at https://github.com/MedICL-VU/LightMyCells.

Magnetic resonance imaging (MRI) is a common and life-saving medical imaging technique. However, acquiring high signal-to-noise ratio MRI scans requires long scan times, resulting in increased costs and patient discomfort, and decreased throughput. Thus, there is great interest in denoising MRI scans, especially for the subtype of diffusion MRI scans that are severely SNR-limited. While most prior MRI denoising methods are supervised in nature, acquiring supervised training datasets for the multitude of anatomies, MRI scanners, and scan parameters proves impractical. Here, we propose Denoising Diffusion Models for Denoising Diffusion MRI (DDM^2), a self-supervised denoising method for MRI denoising using diffusion denoising generative models. Our three-stage framework integrates statistic-based denoising theory into diffusion models and performs denoising through conditional generation. During inference, we represent input noisy measurements as a sample from an intermediate posterior distribution within the diffusion Markov chain. We conduct experiments on 4 real-world in-vivo diffusion MRI datasets and show that our DDM^2 demonstrates superior denoising performances ascertained with clinically-relevant visual qualitative and quantitative metrics.

Image deblurring, removing blurring artifacts from images, is a fundamental task in computational photography and low-level computer vision. Existing approaches focus on specialized solutions tailored to particular blur types, thus, these solutions lack generalization. This limitation in current methods implies requiring multiple models to cover several blur types, which is not practical in many real scenarios. In this paper, we introduce the first all-in-one deblurring method capable of efficiently restoring images affected by diverse blur degradations, including global motion, local motion, blur in low-light conditions, and defocus blur. We propose a mixture-of-experts (MoE) decoding module, which dynamically routes image features based on the recognized blur degradation, enabling precise and efficient restoration in an end-to-end manner. Our unified approach not only achieves performance comparable to dedicated task-specific models, but also demonstrates remarkable robustness and generalization capabilities on unseen blur degradation scenarios.

Diffusion models have recently achieved success in solving Bayesian inverse problems with learned data priors. Current methods build on top of the diffusion sampling process, where each denoising step makes small modifications to samples from the previous step. However, this process struggles to correct errors from earlier sampling steps, leading to worse performance in complicated nonlinear inverse problems, such as phase retrieval. To address this challenge, we propose a new method called Decoupled Annealing Posterior Sampling (DAPS) that relies on a novel noise annealing process. Specifically, we decouple consecutive steps in a diffusion sampling trajectory, allowing them to vary considerably from one another while ensuring their time-marginals anneal to the true posterior as we reduce noise levels. This approach enables the exploration of a larger solution space, improving the success rate for accurate reconstructions. We demonstrate that DAPS significantly improves sample quality and stability across multiple image restoration tasks, particularly in complicated nonlinear inverse problems. For example, we achieve a PSNR of 30.72dB on the FFHQ 256 dataset for phase retrieval, which is an improvement of 9.12dB compared to existing methods.

Inverse problems aim to determine parameters from observations, a crucial task in engineering and science. Lately, generative models, especially diffusion models, have gained popularity in this area for their ability to produce realistic solutions and their good mathematical properties. Despite their success, an important drawback of diffusion models is their sensitivity to the choice of variance schedule, which controls the dynamics of the diffusion process. Fine-tuning this schedule for specific applications is crucial but time-costly and does not guarantee an optimal result. We propose a novel approach for learning the schedule as part of the training process. Our method supports probabilistic conditioning on data, provides high-quality solutions, and is flexible, proving able to adapt to different applications with minimum overhead. This approach is tested in two unrelated inverse problems: super-resolution microscopy and quantitative phase imaging, yielding comparable or superior results to previous methods and fine-tuned diffusion models. We conclude that fine-tuning the schedule by experimentation should be avoided because it can be learned during training in a stable way that yields better results.

Backpropagation-based visualizations have been proposed to interpret convolutional neural networks (CNNs), however a theory is missing to justify their behaviors: Guided backpropagation (GBP) and deconvolutional network (DeconvNet) generate more human-interpretable but less class-sensitive visualizations than saliency map. Motivated by this, we develop a theoretical explanation revealing that GBP and DeconvNet are essentially doing (partial) image recovery which is unrelated to the network decisions. Specifically, our analysis shows that the backward ReLU introduced by GBP and DeconvNet, and the local connections in CNNs are the two main causes of compelling visualizations. Extensive experiments are provided that support the theoretical analysis.

Sparse-view computed tomography (CT) -- using a small number of projections for tomographic reconstruction -- enables much lower radiation dose to patients and accelerated data acquisition. The reconstructed images, however, suffer from strong artifacts, greatly limiting their diagnostic value. Current trends for sparse-view CT turn to the raw data for better information recovery. The resultant dual-domain methods, nonetheless, suffer from secondary artifacts, especially in ultra-sparse view scenarios, and their generalization to other scanners/protocols is greatly limited. A crucial question arises: have the image post-processing methods reached the limit? Our answer is not yet. In this paper, we stick to image post-processing methods due to great flexibility and propose global representation (GloRe) distillation framework for sparse-view CT, termed GloReDi. First, we propose to learn GloRe with Fourier convolution, so each element in GloRe has an image-wide receptive field. Second, unlike methods that only use the full-view images for supervision, we propose to distill GloRe from intermediate-view reconstructed images that are readily available but not explored in previous literature. The success of GloRe distillation is attributed to two key components: representation directional distillation to align the GloRe directions, and band-pass-specific contrastive distillation to gain clinically important details. Extensive experiments demonstrate the superiority of the proposed GloReDi over the state-of-the-art methods, including dual-domain ones. The source code is available at https://github.com/longzilicart/GloReDi.

In recent years, large convolutional neural networks have been widely used as tools for image deblurring, because of their ability in restoring images very precisely. It is well known that image deblurring is mathematically modeled as an ill-posed inverse problem and its solution is difficult to approximate when noise affects the data. Really, one limitation of neural networks for deblurring is their sensitivity to noise and other perturbations, which can lead to instability and produce poor reconstructions. In addition, networks do not necessarily take into account the numerical formulation of the underlying imaging problem, when trained end-to-end. In this paper, we propose some strategies to improve stability without losing to much accuracy to deblur images with deep-learning based methods. First, we suggest a very small neural architecture, which reduces the execution time for training, satisfying a green AI need, and does not extremely amplify noise in the computed image. Second, we introduce a unified framework where a pre-processing step balances the lack of stability of the following, neural network-based, step. Two different pre-processors are presented: the former implements a strong parameter-free denoiser, and the latter is a variational model-based regularized formulation of the latent imaging problem. This framework is also formally characterized by mathematical analysis. Numerical experiments are performed to verify the accuracy and stability of the proposed approaches for image deblurring when unknown or not-quantified noise is present; the results confirm that they improve the network stability with respect to noise. In particular, the model-based framework represents the most reliable trade-off between visual precision and robustness.

Many low-dose CT imaging methods rely on supervised learning, which requires a large number of paired noisy and clean images. However, obtaining paired images in clinical practice is challenging. To address this issue, zero-shot self-supervised methods train denoising networks using only the information within a single image, such as ZS-N2N. However, these methods often employ downsampling operations that degrade image resolution. Additionally, the training dataset is inherently constrained to the image itself. In this paper, we propose a zero-shot low-dose CT imaging method based on sinogram flicking, which operates within a single image but generates many copies via random conjugate ray matching. Specifically, two conjugate X-ray pencil beams measure the same path; their expected values should be identical, while their noise levels vary during measurements. By randomly swapping portions of the conjugate X-rays in the sinogram domain, we generate a large set of sinograms with consistent content but varying noise patterns. When displayed dynamically, these sinograms exhibit a flickering effect due to their identical structural content but differing noise patterns-hence the term sinogram flicking. We train the network on pairs of sinograms with the same content but different noise distributions using a lightweight model adapted from ZS-NSN. This process is repeated to obtain the final results. A simulation study demonstrates that our method outperforms state-of-the-art approaches such as ZS-N2N.

Most existing super-resolution methods and datasets have been developed to improve the image quality in well-lighted conditions. However, these methods do not work well in real-world low-light conditions as the images captured in such conditions lose most important information and contain significant unknown noises. To solve this problem, we propose a SRRIIE dataset with an efficient conditional diffusion probabilistic models-based method. The proposed dataset contains 4800 paired low-high quality images. To ensure that the dataset are able to model the real-world image degradation in low-illumination environments, we capture images using an ILDC camera and an optical zoom lens with exposure levels ranging from -6 EV to 0 EV and ISO levels ranging from 50 to 12800. We comprehensively evaluate with various reconstruction and perceptual metrics and demonstrate the practicabilities of the SRRIIE dataset for deep learning-based methods. We show that most existing methods are less effective in preserving the structures and sharpness of restored images from complicated noises. To overcome this problem, we revise the condition for Raw sensor data and propose a novel time-melding condition for diffusion probabilistic model. Comprehensive quantitative and qualitative experimental results on the real-world benchmark datasets demonstrate the feasibility and effectivenesses of the proposed conditional diffusion probabilistic model on Raw sensor data. Code and dataset will be available at https://github.com/Yaofang-Liu/Super-Resolving

Flatbed scanners have emerged as promising devices for high-resolution, single-image material capture. However, existing approaches assume very specific conditions, such as uniform diffuse illumination, which are only available in certain high-end devices, hindering their scalability and cost. In contrast, in this work, we introduce a method inspired by intrinsic image decomposition, which accurately removes both shading and specularity, effectively allowing captures with any flatbed scanner. Further, we extend previous work on single-image material reflectance capture with the estimation of opacity and transmittance, critical components of full material appearance (SVBSDF), improving the results for any material captured with a flatbed scanner, at a very high resolution and accuracy

Dynamic imaging is a beneficial tool for interventions to assess physiological changes. Nonetheless during dynamic MRI, while achieving a high temporal resolution, the spatial resolution is compromised. To overcome this spatio-temporal trade-off, this research presents a super-resolution (SR) MRI reconstruction with prior knowledge based fine-tuning to maximise spatial information while reducing the required scan-time for dynamic MRIs. An U-Net based network with perceptual loss is trained on a benchmark dataset and fine-tuned using one subject-specific static high resolution MRI as prior knowledge to obtain high resolution dynamic images during the inference stage. 3D dynamic data for three subjects were acquired with different parameters to test the generalisation capabilities of the network. The method was tested for different levels of in-plane undersampling for dynamic MRI. The reconstructed dynamic SR results after fine-tuning showed higher similarity with the high resolution ground-truth, while quantitatively achieving statistically significant improvement. The average SSIM of the lowest resolution experimented during this research (6.25~\% of the k-space) before and after fine-tuning were 0.939 pm 0.008 and 0.957 pm 0.006 respectively. This could theoretically result in an acceleration factor of 16, which can potentially be acquired in less than half a second. The proposed approach shows that the super-resolution MRI reconstruction with prior-information can alleviate the spatio-temporal trade-off in dynamic MRI, even for high acceleration factors.

Denoising diffusion models (DDMs) have recently attracted increasing attention by showing impressive synthesis quality. DDMs are built on a diffusion process that pushes data to the noise distribution and the models learn to denoise. In this paper, we establish the interpretation of DDMs in terms of image restoration (IR). Integrating IR literature allows us to use an alternative objective and diverse forward processes, not confining to the diffusion process. By imposing prior knowledge on the loss function grounded on MAP-based estimation, we eliminate the need for the expensive sampling of DDMs. Also, we propose a multi-scale training, which improves the performance compared to the diffusion process, by taking advantage of the flexibility of the forward process. Experimental results demonstrate that our model improves the quality and efficiency of both training and inference. Furthermore, we show the applicability of our model to inverse problems. We believe that our framework paves the way for designing a new type of flexible general generative model.

This work addresses image restoration tasks through the lens of inverse problems using unpaired datasets. In contrast to traditional approaches -- which typically assume full knowledge of the forward model or access to paired degraded and ground-truth images -- the proposed method operates under minimal assumptions and relies only on small, unpaired datasets. This makes it particularly well-suited for real-world scenarios, where the forward model is often unknown or misspecified, and collecting paired data is costly or infeasible. The method leverages conditional flow matching to model the distribution of degraded observations, while simultaneously learning the forward model via a distribution-matching loss that arises naturally from the framework. Empirically, it outperforms both single-image blind and unsupervised approaches on deblurring and non-uniform point spread function (PSF) calibration tasks. It also matches state-of-the-art performance on blind super-resolution. We also showcase the effectiveness of our method with a proof of concept for lens calibration: a real-world application traditionally requiring time-consuming experiments and specialized equipment. In contrast, our approach achieves this with minimal data acquisition effort.

Plug-and-play Image Restoration (IR) has been widely recognized as a flexible and interpretable method for solving various inverse problems by utilizing any off-the-shelf denoiser as the implicit image prior. However, most existing methods focus on discriminative Gaussian denoisers. Although diffusion models have shown impressive performance for high-quality image synthesis, their potential to serve as a generative denoiser prior to the plug-and-play IR methods remains to be further explored. While several other attempts have been made to adopt diffusion models for image restoration, they either fail to achieve satisfactory results or typically require an unacceptable number of Neural Function Evaluations (NFEs) during inference. This paper proposes DiffPIR, which integrates the traditional plug-and-play method into the diffusion sampling framework. Compared to plug-and-play IR methods that rely on discriminative Gaussian denoisers, DiffPIR is expected to inherit the generative ability of diffusion models. Experimental results on three representative IR tasks, including super-resolution, image deblurring, and inpainting, demonstrate that DiffPIR achieves state-of-the-art performance on both the FFHQ and ImageNet datasets in terms of reconstruction faithfulness and perceptual quality with no more than 100 NFEs. The source code is available at {https://github.com/yuanzhi-zhu/DiffPIR}

Unsupervised denoising is a crucial challenge in real-world imaging applications. Unsupervised deep-learning methods have demonstrated impressive performance on benchmarks based on synthetic noise. However, no metrics are available to evaluate these methods in an unsupervised fashion. This is highly problematic for the many practical applications where ground-truth clean images are not available. In this work, we propose two novel metrics: the unsupervised mean squared error (MSE) and the unsupervised peak signal-to-noise ratio (PSNR), which are computed using only noisy data. We provide a theoretical analysis of these metrics, showing that they are asymptotically consistent estimators of the supervised MSE and PSNR. Controlled numerical experiments with synthetic noise confirm that they provide accurate approximations in practice. We validate our approach on real-world data from two imaging modalities: videos in raw format and transmission electron microscopy. Our results demonstrate that the proposed metrics enable unsupervised evaluation of denoising methods based exclusively on noisy data.

It is well-known that if a network aims to learn how to deblur, it should understand the blur process. Blurring is naturally caused by the convolution of the sharp image with the blur kernel. Thus, allowing the network to learn the blur process in the kernel-level can significantly improve the image deblurring performance. But, current deep networks are still at the pixel-level learning stage, either performing end-to-end pixel-level restoration or stage-wise pseudo kernel-level restoration, failing to enable the deblur model to understand the essence of the blur. To this end, we propose Fourier Kernel Estimator (FKE), which considers the activation operation in Fourier space and converts the convolution problem in the spatial domain to a multiplication problem in Fourier space. Our FKE, jointly optimized with the deblur model, enables the network to learn the kernel-level blur process with low complexity and without any additional supervision. Furthermore, we change the convolution object of the kernel from ``image" to network extracted ``feature", whose rich semantic and structural information is more suitable to blur process learning. With the convolution of the feature and the estimated kernel, our model can learn the essence of blur in kernel-level. To further improve the efficiency of feature extraction, we design a decoupled multi-scale architecture with multiple hierarchical sub-unets with a reversible strategy, which allows better multi-scale encoding and decoding in low training memory. Extensive experiments indicate that our method achieves state-of-the-art motion deblurring results and show potential for handling other kernel-related problems. Analysis also shows our kernel estimator is able to learn physically meaningful kernels. The code will be available at https://github.com/DeepMed-Lab-ECNU/Single-Image-Deblur.

Flow-based latent generative models such as Stable Diffusion 3 are able to generate images with remarkable quality, even enabling photorealistic text-to-image generation. Their impressive performance suggests that these models should also constitute powerful priors for inverse imaging problems, but that approach has not yet led to comparable fidelity. There are several key obstacles: (i) the encoding into a lower-dimensional latent space makes the underlying (forward) mapping non-linear; (ii) the data likelihood term is usually intractable; and (iii) learned generative models struggle to recover rare, atypical data modes during inference. We present FLAIR, a novel training free variational framework that leverages flow-based generative models as a prior for inverse problems. To that end, we introduce a variational objective for flow matching that is agnostic to the type of degradation, and combine it with deterministic trajectory adjustments to recover atypical modes. To enforce exact consistency with the observed data, we decouple the optimization of the data fidelity and regularization terms. Moreover, we introduce a time-dependent calibration scheme in which the strength of the regularization is modulated according to off-line accuracy estimates. Results on standard imaging benchmarks demonstrate that FLAIR consistently outperforms existing diffusion- and flow-based methods in terms of reconstruction quality and sample diversity.

Imaging under extremely low-light conditions presents a significant challenge and is an ill-posed problem due to the low signal-to-noise ratio (SNR) caused by minimal photon capture. Previously, diffusion models have been used for multiple kinds of generative tasks and image-to-image tasks, however, these models work as a post-processing step. These diffusion models are trained on processed images and learn on processed images. However, such approaches are often not well-suited for extremely low-light tasks. Unlike the task of low-light image enhancement or image-to-image enhancement, we tackle the task of learning the entire image-processing pipeline, from the RAW image to a processed image. For this task, a traditional image processing pipeline often consists of multiple specialized parts that are overly reliant on the downstream tasks. Unlike these, we develop a new generative ISP that relies on fine-tuning latent diffusion models on RAW images and generating processed long-exposure images which allows for the apt use of the priors from large text-to-image generation models. We evaluate our approach on popular end-to-end low-light datasets for which we see promising results and set a new SoTA on the See-in-Dark (SID) dataset. Furthermore, with this work, we hope to pave the way for more generative and diffusion-based image processing and other problems on RAW data.

Diffusion model-based inverse problem solvers have demonstrated state-of-the-art performance in cases where the forward operator is known (i.e. non-blind). However, the applicability of the method to blind inverse problems has yet to be explored. In this work, we show that we can indeed solve a family of blind inverse problems by constructing another diffusion prior for the forward operator. Specifically, parallel reverse diffusion guided by gradients from the intermediate stages enables joint optimization of both the forward operator parameters as well as the image, such that both are jointly estimated at the end of the parallel reverse diffusion procedure. We show the efficacy of our method on two representative tasks -- blind deblurring, and imaging through turbulence -- and show that our method yields state-of-the-art performance, while also being flexible to be applicable to general blind inverse problems when we know the functional forms.

Off-resonance artifacts in magnetic resonance imaging (MRI) are visual distortions that occur when the actual resonant frequencies of spins within the imaging volume differ from the expected frequencies used to encode spatial information. These discrepancies can be caused by a variety of factors, including magnetic field inhomogeneities, chemical shifts, or susceptibility differences within the tissues. Such artifacts can manifest as blurring, ghosting, or misregistration of the reconstructed image, and they often compromise its diagnostic quality. We propose to resolve these artifacts by lifting the 2D MRI reconstruction problem to 3D, introducing an additional "spectral" dimension to model this off-resonance. Our approach is inspired by recent progress in modeling radiance fields, and is capable of reconstructing both static and dynamic MR images as well as separating fat and water, which is of independent clinical interest. We demonstrate our approach in the context of PROPELLER (Periodically Rotated Overlapping ParallEL Lines with Enhanced Reconstruction) MRI acquisitions, which are popular for their robustness to motion artifacts. Our method operates in a few minutes on a single GPU, and to our knowledge is the first to correct for chemical shift in gradient echo PROPELLER MRI reconstruction without additional measurements or pretraining data.

In this work we introduce a novel stochastic algorithm dubbed SNIPS, which draws samples from the posterior distribution of any linear inverse problem, where the observation is assumed to be contaminated by additive white Gaussian noise. Our solution incorporates ideas from Langevin dynamics and Newton's method, and exploits a pre-trained minimum mean squared error (MMSE) Gaussian denoiser. The proposed approach relies on an intricate derivation of the posterior score function that includes a singular value decomposition (SVD) of the degradation operator, in order to obtain a tractable iterative algorithm for the desired sampling. Due to its stochasticity, the algorithm can produce multiple high perceptual quality samples for the same noisy observation. We demonstrate the abilities of the proposed paradigm for image deblurring, super-resolution, and compressive sensing. We show that the samples produced are sharp, detailed and consistent with the given measurements, and their diversity exposes the inherent uncertainty in the inverse problem being solved.

Image denoisers have been shown to be powerful priors for solving inverse problems in imaging. In this work, we introduce a generalization of these methods that allows any image restoration network to be used as an implicit prior. The proposed method uses priors specified by deep neural networks pre-trained as general restoration operators. The method provides a principled approach for adapting state-of-the-art restoration models for other inverse problems. Our theoretical result analyzes its convergence to a stationary point of a global functional associated with the restoration operator. Numerical results show that the method using a super-resolution prior achieves state-of-the-art performance both quantitatively and qualitatively. Overall, this work offers a step forward for solving inverse problems by enabling the use of powerful pre-trained restoration models as priors.

This paper presents a data-driven, task-specific paradigm for experimental design, to shorten acquisition time, reduce costs, and accelerate the deployment of imaging devices. Current approaches in experimental design focus on model-parameter estimation and require specification of a particular model, whereas in imaging, other tasks may drive the design. Furthermore, such approaches often lead to intractable optimization problems in real-world imaging applications. Here we present a new paradigm for experimental design that simultaneously optimizes the design (set of image channels) and trains a machine-learning model to execute a user-specified image-analysis task. The approach obtains data densely-sampled over the measurement space (many image channels) for a small number of acquisitions, then identifies a subset of channels of prespecified size that best supports the task. We propose a method: TADRED for TAsk-DRiven Experimental Design in imaging, to identify the most informative channel-subset whilst simultaneously training a network to execute the task given the subset. Experiments demonstrate the potential of TADRED in diverse imaging applications: several clinically-relevant tasks in magnetic resonance imaging; and remote sensing and physiological applications of hyperspectral imaging. Results show substantial improvement over classical experimental design, two recent application-specific methods within the new paradigm, and state-of-the-art approaches in supervised feature selection. We anticipate further applications of our approach. Code is available: https://github.com/sbb-gh/experimental-design-multichannel

In the image acquisition process, various forms of degradation, including noise, haze, and rain, are frequently introduced. These degradations typically arise from the inherent limitations of cameras or unfavorable ambient conditions. To recover clean images from degraded versions, numerous specialized restoration methods have been developed, each targeting a specific type of degradation. Recently, all-in-one algorithms have garnered significant attention by addressing different types of degradations within a single model without requiring prior information of the input degradation type. However, these methods purely operate in the spatial domain and do not delve into the distinct frequency variations inherent to different degradation types. To address this gap, we propose an adaptive all-in-one image restoration network based on frequency mining and modulation. Our approach is motivated by the observation that different degradation types impact the image content on different frequency subbands, thereby requiring different treatments for each restoration task. Specifically, we first mine low- and high-frequency information from the input features, guided by the adaptively decoupled spectra of the degraded image. The extracted features are then modulated by a bidirectional operator to facilitate interactions between different frequency components. Finally, the modulated features are merged into the original input for a progressively guided restoration. With this approach, the model achieves adaptive reconstruction by accentuating the informative frequency subbands according to different input degradations. Extensive experiments demonstrate that the proposed method achieves state-of-the-art performance on different image restoration tasks, including denoising, dehazing, deraining, motion deblurring, and low-light image enhancement. Our code is available at https://github.com/c-yn/AdaIR.

Magnetic Resonance Imaging (MRI), including diffusion MRI (dMRI), serves as a ``microscope'' for anatomical structures and routinely mitigates the influence of low signal-to-noise ratio scans by compromising temporal or spatial resolution. However, these compromises fail to meet clinical demands for both efficiency and precision. Consequently, denoising is a vital preprocessing step, particularly for dMRI, where clean data is unavailable. In this paper, we introduce Di-Fusion, a fully self-supervised denoising method that leverages the latter diffusion steps and an adaptive sampling process. Unlike previous approaches, our single-stage framework achieves efficient and stable training without extra noise model training and offers adaptive and controllable results in the sampling process. Our thorough experiments on real and simulated data demonstrate that Di-Fusion achieves state-of-the-art performance in microstructure modeling, tractography tracking, and other downstream tasks. Code is available at https://github.com/FouierL/Di-Fusion.

Intracellular lasers are emerging as powerful biosensors for multiplexed tracking and precision sensing of cells and their microenvironment. This sensing capacity is enabled by quantifying their narrow-linewidth emission spectra, which is presently challenging to do at high speeds. In this work, we demonstrate rapid snapshot hyperspectral imaging of intracellular lasers. Using integral field mapping with a microlens array and a diffraction grating, we obtain images of the spatial and spectral intensity distribution from a single camera acquisition. We demonstrate widefield hyperspectral imaging over a 3times3 mm^2 field of view and volumetric imaging over 250times250times800 mum^3 volumes with a spatial resolution of 5 mum and a spectral resolution of less than 0.8 nm. We evaluate the performance and outline the challenges and strengths of snapshot methods in the context of characterising the emission from intracellular lasers. This method offers new opportunities for a diverse range of applications, including high-throughput and long-term biosensing with intracellular lasers.

Chest X-rays (CXRs) are commonly utilized as a low-dose modality for lung screening. Nonetheless, the efficacy of CXRs is somewhat impeded, given that approximately 75% of the lung area overlaps with bone, which in turn hampers the detection and diagnosis of diseases. As a remedial measure, bone suppression techniques have been introduced. The current dual-energy subtraction imaging technique in the clinic requires costly equipment and subjects being exposed to high radiation. To circumvent these issues, deep learning-based image generation algorithms have been proposed. However, existing methods fall short in terms of producing high-quality images and capturing texture details, particularly with pulmonary vessels. To address these issues, this paper proposes a new bone suppression framework, termed BS-Diff, that comprises a conditional diffusion model equipped with a U-Net architecture and a simple enhancement module to incorporate an autoencoder. Our proposed network cannot only generate soft tissue images with a high bone suppression rate but also possesses the capability to capture fine image details. Additionally, we compiled the largest dataset since 2010, including data from 120 patients with high-definition, high-resolution paired CXRs and soft tissue images collected by our affiliated hospital. Extensive experiments, comparative analyses, ablation studies, and clinical evaluations indicate that the proposed BS-Diff outperforms several bone-suppression models across multiple metrics. Our code can be accessed at https://github.com/Benny0323/BS-Diff.

Whenever we use devices to take measurements, calibration is indispensable. While the purpose of calibration is to reduce bias and uncertainty in the measurements, it can be quite difficult, expensive, and sometimes even impossible to implement. We study a challenging problem called self-calibration, i.e., the task of designing an algorithm for devices so that the algorithm is able to perform calibration automatically. More precisely, we consider the setup y = A(d) x + epsilon where only partial information about the sensing matrix A(d) is known and where A(d) linearly depends on d. The goal is to estimate the calibration parameter d (resolve the uncertainty in the sensing process) and the signal/object of interests x simultaneously. For three different models of practical relevance, we show how such a bilinear inverse problem, including blind deconvolution as an important example, can be solved via a simple linear least squares approach. As a consequence, the proposed algorithms are numerically extremely efficient, thus potentially allowing for real-time deployment. We also present a variation of the least squares approach, which leads to a~spectral method, where the solution to the bilinear inverse problem can be found by computing the singular vector associated with the smallest singular value of a certain matrix derived from the bilinear system. Explicit theoretical guarantees and stability theory are derived for both techniques; and the number of sampling complexity is nearly optimal (up to a poly-log factor). Applications in imaging sciences and signal processing are discussed and numerical simulations are presented to demonstrate the effectiveness and efficiency of our approach.

Echocardiography plays a central role in cardiac imaging, offering dynamic views of the heart that are essential for diagnosis and monitoring. However, image quality can be significantly degraded by haze arising from multipath reverberations, particularly in difficult-to-image patients. In this work, we propose a semantic-guided, diffusion-based dehazing algorithm developed for the MICCAI Dehazing Echocardiography Challenge (DehazingEcho2025). Our method integrates a pixel-wise noise model, derived from semantic segmentation of hazy inputs into a diffusion posterior sampling framework guided by a generative prior trained on clean ultrasound data. Quantitative evaluation on the challenge dataset demonstrates strong performance across contrast and fidelity metrics. Code for the submitted algorithm is available at https://github.com/tristan-deep/semantic-diffusion-echo-dehazing.

Diffusion Probabilistic Models (DPMs) have recently been employed for image deblurring, formulated as an image-conditioned generation process that maps Gaussian noise to the high-quality image, conditioned on the blurry input. Image-conditioned DPMs (icDPMs) have shown more realistic results than regression-based methods when trained on pairwise in-domain data. However, their robustness in restoring images is unclear when presented with out-of-domain images as they do not impose specific degradation models or intermediate constraints. To this end, we introduce a simple yet effective multiscale structure guidance as an implicit bias that informs the icDPM about the coarse structure of the sharp image at the intermediate layers. This guided formulation leads to a significant improvement of the deblurring results, particularly on unseen domain. The guidance is extracted from the latent space of a regression network trained to predict the clean-sharp target at multiple lower resolutions, thus maintaining the most salient sharp structures. With both the blurry input and multiscale guidance, the icDPM model can better understand the blur and recover the clean image. We evaluate a single-dataset trained model on diverse datasets and demonstrate more robust deblurring results with fewer artifacts on unseen data. Our method outperforms existing baselines, achieving state-of-the-art perceptual quality while keeping competitive distortion metrics.

We demonstrate a compact, cost-effective snapshot spectral imaging system named Aperture Diffraction Imaging Spectrometer (ADIS), which consists only of an imaging lens with an ultra-thin orthogonal aperture mask and a mosaic filter sensor, requiring no additional physical footprint compared to common RGB cameras. Then we introduce a new optical design that each point in the object space is multiplexed to discrete encoding locations on the mosaic filter sensor by diffraction-based spatial-spectral projection engineering generated from the orthogonal mask. The orthogonal projection is uniformly accepted to obtain a weakly calibration-dependent data form to enhance modulation robustness. Meanwhile, the Cascade Shift-Shuffle Spectral Transformer (CSST) with strong perception of the diffraction degeneration is designed to solve a sparsity-constrained inverse problem, realizing the volume reconstruction from 2D measurements with Large amount of aliasing. Our system is evaluated by elaborating the imaging optical theory and reconstruction algorithm with demonstrating the experimental imaging under a single exposure. Ultimately, we achieve the sub-super-pixel spatial resolution and high spectral resolution imaging. The code will be available at: https://github.com/Krito-ex/CSST.

Low-light photography produces images with low signal-to-noise ratios due to limited photons. In such conditions, common approximations like the Gaussian noise model fall short, and many denoising techniques fail to remove noise effectively. Although deep-learning methods perform well, they require large datasets of paired images that are impractical to acquire. As a remedy, synthesizing realistic low-light noise has gained significant attention. In this paper, we investigate the ability of diffusion models to capture the complex distribution of low-light noise. We show that a naive application of conventional diffusion models is inadequate for this task and propose three key adaptations that enable high-precision noise generation without calibration or post-processing: a two-branch architecture to better model signal-dependent and signal-independent noise, the incorporation of positional information to capture fixed-pattern noise, and a tailored diffusion noise schedule. Consequently, our model enables the generation of large datasets for training low-light denoising networks, leading to state-of-the-art performance. Through comprehensive analysis, including statistical evaluation and noise decomposition, we provide deeper insights into the characteristics of the generated data.

We present the first framework to solve linear inverse problems leveraging pre-trained latent diffusion models. Previously proposed algorithms (such as DPS and DDRM) only apply to pixel-space diffusion models. We theoretically analyze our algorithm showing provable sample recovery in a linear model setting. The algorithmic insight obtained from our analysis extends to more general settings often considered in practice. Experimentally, we outperform previously proposed posterior sampling algorithms in a wide variety of problems including random inpainting, block inpainting, denoising, deblurring, destriping, and super-resolution.

Most existing Image Restoration (IR) models are task-specific, which can not be generalized to different degradation operators. In this work, we propose the Denoising Diffusion Null-Space Model (DDNM), a novel zero-shot framework for arbitrary linear IR problems, including but not limited to image super-resolution, colorization, inpainting, compressed sensing, and deblurring. DDNM only needs a pre-trained off-the-shelf diffusion model as the generative prior, without any extra training or network modifications. By refining only the null-space contents during the reverse diffusion process, we can yield diverse results satisfying both data consistency and realness. We further propose an enhanced and robust version, dubbed DDNM+, to support noisy restoration and improve restoration quality for hard tasks. Our experiments on several IR tasks reveal that DDNM outperforms other state-of-the-art zero-shot IR methods. We also demonstrate that DDNM+ can solve complex real-world applications, e.g., old photo restoration.

Domain generalization is critical for real-world applications of machine learning to microscopy images, including histopathology and fluorescence imaging. Artifacts in these modalities arise through a complex combination of factors relating to tissue collection and laboratory processing, as well as factors intrinsic to patient samples. In fluorescence imaging, these artifacts stem from variations across experimental batches. The complexity and subtlety of these artifacts make the enumeration of data domains intractable. Therefore, augmentation-based methods of domain generalization that require domain identifiers and manual fine-tuning are inadequate in this setting. To overcome this challenge, we introduce ContriMix, a domain generalization technique that learns to generate synthetic images by disentangling and permuting the biological content ("content") and technical variations ("attributes") in microscopy images. ContriMix does not rely on domain identifiers or handcrafted augmentations and makes no assumptions about the input characteristics of images. We assess the performance of ContriMix on two pathology datasets dealing with patch classification and Whole Slide Image label prediction tasks respectively (Camelyon17-WILDS and RCC subtyping), and one fluorescence microscopy dataset (RxRx1-WILDS). Without any access to domain identifiers at train or test time, ContriMix performs similar or better than current state-of-the-art methods in all these datasets, motivating its usage for microscopy image analysis in real-world settings where domain information is hard to come by. The code for ContriMix can be found at https://gitlab.com/huutan86/contrimix

In this paper, we introduce a novel unsupervised network to denoise microscopy videos featured by image sequences captured by a fixed location microscopy camera. Specifically, we propose a DeepTemporal Interpolation method, leveraging a temporal signal filter integrated into the bottom CNN layers, to restore microscopy videos corrupted by unknown noise types. Our unsupervised denoising architecture is distinguished by its ability to adapt to multiple noise conditions without the need for pre-existing noise distribution knowledge, addressing a significant challenge in real-world medical applications. Furthermore, we evaluate our denoising framework using both real microscopy recordings and simulated data, validating our outperforming video denoising performance across a broad spectrum of noise scenarios. Extensive experiments demonstrate that our unsupervised model consistently outperforms state-of-the-art supervised and unsupervised video denoising techniques, proving especially effective for microscopy videos.

Enhancing the visibility in extreme low-light environments is a challenging task. Under nearly lightless condition, existing image denoising methods could easily break down due to significantly low SNR. In this paper, we systematically study the noise statistics in the imaging pipeline of CMOS photosensors, and formulate a comprehensive noise model that can accurately characterize the real noise structures. Our novel model considers the noise sources caused by digital camera electronics which are largely overlooked by existing methods yet have significant influence on raw measurement in the dark. It provides a way to decouple the intricate noise structure into different statistical distributions with physical interpretations. Moreover, our noise model can be used to synthesize realistic training data for learning-based low-light denoising algorithms. In this regard, although promising results have been shown recently with deep convolutional neural networks, the success heavily depends on abundant noisy clean image pairs for training, which are tremendously difficult to obtain in practice. Generalizing their trained models to images from new devices is also problematic. Extensive experiments on multiple low-light denoising datasets -- including a newly collected one in this work covering various devices -- show that a deep neural network trained with our proposed noise formation model can reach surprisingly-high accuracy. The results are on par with or sometimes even outperform training with paired real data, opening a new door to real-world extreme low-light photography.

Magnetic resonance imaging (MRI) is a cornerstone of modern medical imaging. However, long image acquisition times, the need for qualitative expert analysis, and the lack of (and difficulty extracting) quantitative indicators that are sensitive to tissue health have curtailed widespread clinical and research studies. While recent machine learning methods for MRI reconstruction and analysis have shown promise for reducing this burden, these techniques are primarily validated with imperfect image quality metrics, which are discordant with clinically-relevant measures that ultimately hamper clinical deployment and clinician trust. To mitigate this challenge, we present the Stanford Knee MRI with Multi-Task Evaluation (SKM-TEA) dataset, a collection of quantitative knee MRI (qMRI) scans that enables end-to-end, clinically-relevant evaluation of MRI reconstruction and analysis tools. This 1.6TB dataset consists of raw-data measurements of ~25,000 slices (155 patients) of anonymized patient MRI scans, the corresponding scanner-generated DICOM images, manual segmentations of four tissues, and bounding box annotations for sixteen clinically relevant pathologies. We provide a framework for using qMRI parameter maps, along with image reconstructions and dense image labels, for measuring the quality of qMRI biomarker estimates extracted from MRI reconstruction, segmentation, and detection techniques. Finally, we use this framework to benchmark state-of-the-art baselines on this dataset. We hope our SKM-TEA dataset and code can enable a broad spectrum of research for modular image reconstruction and image analysis in a clinically informed manner. Dataset access, code, and benchmarks are available at https://github.com/StanfordMIMI/skm-tea.

Time-lapse fluorescent microscopy (TLFM) combined with predictive mathematical modelling is a powerful tool to study the inherently dynamic processes of life on the single-cell level. Such experiments are costly, complex and labour intensive. A complimentary approach and a step towards in silico experimentation, is to synthesise the imagery itself. Here, we propose Multi-StyleGAN as a descriptive approach to simulate time-lapse fluorescence microscopy imagery of living cells, based on a past experiment. This novel generative adversarial network synthesises a multi-domain sequence of consecutive timesteps. We showcase Multi-StyleGAN on imagery of multiple live yeast cells in microstructured environments and train on a dataset recorded in our laboratory. The simulation captures underlying biophysical factors and time dependencies, such as cell morphology, growth, physical interactions, as well as the intensity of a fluorescent reporter protein. An immediate application is to generate additional training and validation data for feature extraction algorithms or to aid and expedite development of advanced experimental techniques such as online monitoring or control of cells. Code and dataset is available at https://git.rwth-aachen.de/bcs/projects/tp/multi-stylegan.

Three-dimensional microscopy is often limited by anisotropic spatial resolution, resulting in lower axial resolution than lateral resolution. Current State-of-The-Art (SoTA) isotropic reconstruction methods utilizing deep neural networks can achieve impressive super-resolution performance in fixed imaging settings. However, their generality in practical use is limited by degraded performance caused by artifacts and blurring when facing unseen anisotropic factors. To address these issues, we propose DiffuseIR, an unsupervised method for isotropic reconstruction based on diffusion models. First, we pre-train a diffusion model to learn the structural distribution of biological tissue from lateral microscopic images, resulting in generating naturally high-resolution images. Then we use low-axial-resolution microscopy images to condition the generation process of the diffusion model and generate high-axial-resolution reconstruction results. Since the diffusion model learns the universal structural distribution of biological tissues, which is independent of the axial resolution, DiffuseIR can reconstruct authentic images with unseen low-axial resolutions into a high-axial resolution without requiring re-training. The proposed DiffuseIR achieves SoTA performance in experiments on EM data and can even compete with supervised methods.

Lensless cameras disregard the conventional design that imaging should mimic the human eye. This is done by replacing the lens with a thin mask, and moving image formation to the digital post-processing. State-of-the-art lensless imaging techniques use learned approaches that combine physical modeling and neural networks. However, these approaches make simplifying modeling assumptions for ease of calibration and computation. Moreover, the generalizability of learned approaches to lensless measurements of new masks has not been studied. To this end, we utilize a modular learned reconstruction in which a key component is a pre-processor prior to image recovery. We theoretically demonstrate the pre-processor's necessity for standard image recovery techniques (Wiener filtering and iterative algorithms), and through extensive experiments show its effectiveness for multiple lensless imaging approaches and across datasets of different mask types (amplitude and phase). We also perform the first generalization benchmark across mask types to evaluate how well reconstructions trained with one system generalize to others. Our modular reconstruction enables us to use pre-trained components and transfer learning on new systems to cut down weeks of tedious measurements and training. As part of our work, we open-source four datasets, and software for measuring datasets and for training our modular reconstruction.

Magnetic Resonance Imaging (MRI) is a critical tool in modern medical diagnostics, yet its prolonged acquisition time remains a critical limitation, especially in time-sensitive clinical scenarios. While undersampling strategies can accelerate image acquisition, they often result in image artifacts and degraded quality. Recent diffusion models have shown promise for reconstructing high-fidelity images from undersampled data by learning powerful image priors; however, most existing approaches either (i) rely on unsupervised score functions without paired supervision or (ii) apply data consistency only as a post-processing step. In this work, we introduce a conditional denoising diffusion framework with iterative data-consistency correction, which differs from prior methods by embedding the measurement model directly into every reverse diffusion step and training the model on paired undersampled-ground truth data. This hybrid design bridges generative flexibility with explicit enforcement of MRI physics. Experiments on the fastMRI dataset demonstrate that our framework consistently outperforms recent state-of-the-art deep learning and diffusion-based methods in SSIM, PSNR, and LPIPS, with LPIPS capturing perceptual improvements more faithfully. These results demonstrate that integrating conditional supervision with iterative consistency updates yields substantial improvements in both pixel-level fidelity and perceptual realism, establishing a principled and practical advance toward robust, accelerated MRI reconstruction.

Chest X-Ray (CXR) imaging for pulmonary diagnosis raises significant challenges, primarily because bone structures can obscure critical details necessary for accurate diagnosis. Recent advances in deep learning, particularly with diffusion models, offer significant promise for effectively minimizing the visibility of bone structures in CXR images, thereby improving clarity and diagnostic accuracy. Nevertheless, existing diffusion-based methods for bone suppression in CXR imaging struggle to balance the complete suppression of bones with preserving local texture details. Additionally, their high computational demand and extended processing time hinder their practical use in clinical settings. To address these limitations, we introduce a Global-Local Latent Consistency Model (GL-LCM) architecture. This model combines lung segmentation, dual-path sampling, and global-local fusion, enabling fast high-resolution bone suppression in CXR images. To tackle potential boundary artifacts and detail blurring in local-path sampling, we further propose Local-Enhanced Guidance, which addresses these issues without additional training. Comprehensive experiments on a self-collected dataset SZCH-X-Rays, and the public dataset JSRT, reveal that our GL-LCM delivers superior bone suppression and remarkable computational efficiency, significantly outperforming several competitive methods. Our code is available at https://github.com/diaoquesang/GL-LCM.

Image research has shown substantial attention in deblurring networks in recent years. Yet, their practical usage in real-world deblurring, especially motion blur, remains limited due to the lack of pixel-aligned training triplets (background, blurred image, and blur heat map) and restricted information inherent in blurred images. This paper presents a simple yet efficient framework to synthetic and restore motion blur images using Inertial Measurement Unit (IMU) data. Notably, the framework includes a strategy for training triplet generation, and a Gyroscope-Aided Motion Deblurring (GAMD) network for blurred image restoration. The rationale is that through harnessing IMU data, we can determine the transformation of the camera pose during the image exposure phase, facilitating the deduction of the motion trajectory (aka. blur trajectory) for each point inside the three-dimensional space. Thus, the synthetic triplets using our strategy are inherently close to natural motion blur, strictly pixel-aligned, and mass-producible. Through comprehensive experiments, we demonstrate the advantages of the proposed framework: only two-pixel errors between our synthetic and real-world blur trajectories, a marked improvement (around 33.17%) of the state-of-the-art deblurring method MIMO on Peak Signal-to-Noise Ratio (PSNR).

The performance of single image super-resolution depends heavily on how to generate and complement high-frequency details to low-resolution images. Recently, diffusion-based models exhibit great potential in generating high-quality images for super-resolution tasks. However, existing models encounter difficulties in directly predicting high-frequency information of wide bandwidth by solely utilizing the high-resolution ground truth as the target for all sampling timesteps. To tackle this problem and achieve higher-quality super-resolution, we propose a novel Frequency Domain-guided multiscale Diffusion model (FDDiff), which decomposes the high-frequency information complementing process into finer-grained steps. In particular, a wavelet packet-based frequency complement chain is developed to provide multiscale intermediate targets with increasing bandwidth for reverse diffusion process. Then FDDiff guides reverse diffusion process to progressively complement the missing high-frequency details over timesteps. Moreover, we design a multiscale frequency refinement network to predict the required high-frequency components at multiple scales within one unified network. Comprehensive evaluations on popular benchmarks are conducted, and demonstrate that FDDiff outperforms prior generative methods with higher-fidelity super-resolution results.

Many camera sensors use a dual-pixel (DP) design that operates as a rudimentary light field providing two sub-aperture views of a scene in a single capture. The DP sensor was developed to improve how cameras perform autofocus. Since the DP sensor's introduction, researchers have found additional uses for the DP data, such as depth estimation, reflection removal, and defocus deblurring. We are interested in the latter task of defocus deblurring. In particular, we propose a single-image deblurring network that incorporates the two sub-aperture views into a multi-task framework. Specifically, we show that jointly learning to predict the two DP views from a single blurry input image improves the network's ability to learn to deblur the image. Our experiments show this multi-task strategy achieves +1dB PSNR improvement over state-of-the-art defocus deblurring methods. In addition, our multi-task framework allows accurate DP-view synthesis (e.g., ~39dB PSNR) from the single input image. These high-quality DP views can be used for other DP-based applications, such as reflection removal. As part of this effort, we have captured a new dataset of 7,059 high-quality images to support our training for the DP-view synthesis task. Our dataset, code, and trained models are publicly available at https://github.com/Abdullah-Abuolaim/multi-task-defocus-deblurring-dual-pixel-nimat.

In this study, we reveal that the interaction between haze degradation and JPEG compression introduces complex joint loss effects, which significantly complicate image restoration. Existing dehazing models often neglect compression effects, which limits their effectiveness in practical applications. To address these challenges, we introduce three key contributions. First, we design FDG-Diff, a novel frequency-domain-guided dehazing framework that improves JPEG image restoration by leveraging frequency-domain information. Second, we introduce the High-Frequency Compensation Module (HFCM), which enhances spatial-domain detail restoration by incorporating frequency-domain augmentation techniques into a diffusion-based restoration framework. Lastly, the introduction of the Degradation-Aware Denoising Timestep Predictor (DADTP) module further enhances restoration quality by enabling adaptive region-specific restoration, effectively addressing regional degradation inconsistencies in compressed hazy images. Experimental results across multiple compressed dehazing datasets demonstrate that our method consistently outperforms the latest state-of-the-art approaches. Code be available at https://github.com/SYSUzrc/FDG-Diff.

Intrinsic imaging or intrinsic image decomposition has traditionally been described as the problem of decomposing an image into two layers: a reflectance, the albedo invariant color of the material; and a shading, produced by the interaction between light and geometry. Deep learning techniques have been broadly applied in recent years to increase the accuracy of those separations. In this survey, we overview those results in context of well-known intrinsic image data sets and relevant metrics used in the literature, discussing their suitability to predict a desirable intrinsic image decomposition. Although the Lambertian assumption is still a foundational basis for many methods, we show that there is increasing awareness on the potential of more sophisticated physically-principled components of the image formation process, that is, optically accurate material models and geometry, and more complete inverse light transport estimations. We classify these methods in terms of the type of decomposition, considering the priors and models used, as well as the learning architecture and methodology driving the decomposition process. We also provide insights about future directions for research, given the recent advances in neural, inverse and differentiable rendering techniques.

The rapid advancement of diffusion models has significantly improved high-quality image generation, making generated content increasingly challenging to distinguish from real images and raising concerns about potential misuse. In this paper, we observe that diffusion models struggle to accurately reconstruct mid-band frequency information in real images, suggesting the limitation could serve as a cue for detecting diffusion model generated images. Motivated by this observation, we propose a novel method called Frequency-guided Reconstruction Error (FIRE), which, to the best of our knowledge, is the first to investigate the influence of frequency decomposition on reconstruction error. FIRE assesses the variation in reconstruction error before and after the frequency decomposition, offering a robust method for identifying diffusion model generated images. Extensive experiments show that FIRE generalizes effectively to unseen diffusion models and maintains robustness against diverse perturbations.

Hyperspectral image (HSI) restoration aims at recovering clean images from degraded observations and plays a vital role in downstream tasks. Existing model-based methods have limitations in accurately modeling the complex image characteristics with handcraft priors, and deep learning-based methods suffer from poor generalization ability. To alleviate these issues, this paper proposes an unsupervised HSI restoration framework with pre-trained diffusion model (HIR-Diff), which restores the clean HSIs from the product of two low-rank components, i.e., the reduced image and the coefficient matrix. Specifically, the reduced image, which has a low spectral dimension, lies in the image field and can be inferred from our improved diffusion model where a new guidance function with total variation (TV) prior is designed to ensure that the reduced image can be well sampled. The coefficient matrix can be effectively pre-estimated based on singular value decomposition (SVD) and rank-revealing QR (RRQR) factorization. Furthermore, a novel exponential noise schedule is proposed to accelerate the restoration process (about 5times acceleration for denoising) with little performance decrease. Extensive experimental results validate the superiority of our method in both performance and speed on a variety of HSI restoration tasks, including HSI denoising, noisy HSI super-resolution, and noisy HSI inpainting. The code is available at https://github.com/LiPang/HIRDiff.

Denoising diffusion models have emerged as the go-to framework for solving inverse problems in imaging. A critical concern regarding these models is their performance on out-of-distribution (OOD) tasks, which remains an under-explored challenge. Realistic reconstructions inconsistent with the measured data can be generated, hallucinating image features that are uniquely present in the training dataset. To simultaneously enforce data-consistency and leverage data-driven priors, we introduce a novel sampling framework called Steerable Conditional Diffusion. This framework adapts the denoising network specifically to the available measured data. Utilising our proposed method, we achieve substantial enhancements in OOD performance across diverse imaging modalities, advancing the robust deployment of denoising diffusion models in real-world applications.

The observations in many applications consist of counts of discrete events, such as photons hitting a detector, which cannot be effectively modeled using an additive bounded or Gaussian noise model, and instead require a Poisson noise model. As a result, accurate reconstruction of a spatially or temporally distributed phenomenon (f*) from Poisson data (y) cannot be effectively accomplished by minimizing a conventional penalized least-squares objective function. The problem addressed in this paper is the estimation of f* from y in an inverse problem setting, where (a) the number of unknowns may potentially be larger than the number of observations and (b) f* admits a sparse approximation. The optimization formulation considered in this paper uses a penalized negative Poisson log-likelihood objective function with nonnegativity constraints (since Poisson intensities are naturally nonnegative). In particular, the proposed approach incorporates key ideas of using separable quadratic approximations to the objective function at each iteration and penalization terms related to l1 norms of coefficient vectors, total variation seminorms, and partition-based multiscale estimation methods.

Single-view novel view synthesis, the task of generating images from new viewpoints based on a single reference image, is an important but challenging task in computer vision. Recently, Denoising Diffusion Probabilistic Model (DDPM) has become popular in this area due to its strong ability to generate high-fidelity images. However, current diffusion-based methods directly rely on camera pose matrices as viewing conditions, globally and implicitly introducing 3D constraints. These methods may suffer from inconsistency among generated images from different perspectives, especially in regions with intricate textures and structures. In this work, we present Light Field Diffusion (LFD), a conditional diffusion-based model for single-view novel view synthesis. Unlike previous methods that employ camera pose matrices, LFD transforms the camera view information into light field encoding and combines it with the reference image. This design introduces local pixel-wise constraints within the diffusion models, thereby encouraging better multi-view consistency. Experiments on several datasets show that our LFD can efficiently generate high-fidelity images and maintain better 3D consistency even in intricate regions. Our method can generate images with higher quality than NeRF-based models, and we obtain sample quality similar to other diffusion-based models but with only one-third of the model size.

Diffusion models show promise for dynamic scene deblurring; however, existing studies often fail to leverage the intrinsic nature of the blurring process within diffusion models, limiting their full potential. To address it, we present a Blur Diffusion Model (BlurDM), which seamlessly integrates the blur formation process into diffusion for image deblurring. Observing that motion blur stems from continuous exposure, BlurDM implicitly models the blur formation process through a dual-diffusion forward scheme, diffusing both noise and blur onto a sharp image. During the reverse generation process, we derive a dual denoising and deblurring formulation, enabling BlurDM to recover the sharp image by simultaneously denoising and deblurring, given pure Gaussian noise conditioned on the blurred image as input. Additionally, to efficiently integrate BlurDM into deblurring networks, we perform BlurDM in the latent space, forming a flexible prior generation network for deblurring. Extensive experiments demonstrate that BlurDM significantly and consistently enhances existing deblurring methods on four benchmark datasets. The source code is available at https://github.com/Jin-Ting-He/BlurDM.

Diffusion models have become a popular approach for image generation and reconstruction due to their numerous advantages. However, most diffusion-based inverse problem-solving methods only deal with 2D images, and even recently published 3D methods do not fully exploit the 3D distribution prior. To address this, we propose a novel approach using two perpendicular pre-trained 2D diffusion models to solve the 3D inverse problem. By modeling the 3D data distribution as a product of 2D distributions sliced in different directions, our method effectively addresses the curse of dimensionality. Our experimental results demonstrate that our method is highly effective for 3D medical image reconstruction tasks, including MRI Z-axis super-resolution, compressed sensing MRI, and sparse-view CT. Our method can generate high-quality voxel volumes suitable for medical applications.

Digital cameras transform sensor RAW readings into RGB images by means of their Image Signal Processor (ISP). Computational photography tasks such as image denoising and colour constancy are commonly performed in the RAW domain, in part due to the inherent hardware design, but also due to the appealing simplicity of noise statistics that result from the direct sensor readings. Despite this, the availability of RAW images is limited in comparison with the abundance and diversity of available RGB data. Recent approaches have attempted to bridge this gap by estimating the RGB to RAW mapping: handcrafted model-based methods that are interpretable and controllable usually require manual parameter fine-tuning, while end-to-end learnable neural networks require large amounts of training data, at times with complex training procedures, and generally lack interpretability and parametric control. Towards addressing these existing limitations, we present a novel hybrid model-based and data-driven ISP that builds on canonical ISP operations and is both learnable and interpretable. Our proposed invertible model, capable of bidirectional mapping between RAW and RGB domains, employs end-to-end learning of rich parameter representations, i.e. dictionaries, that are free from direct parametric supervision and additionally enable simple and plausible data augmentation. We evidence the value of our data generation process by extensive experiments under both RAW image reconstruction and RAW image denoising tasks, obtaining state-of-the-art performance in both. Additionally, we show that our ISP can learn meaningful mappings from few data samples, and that denoising models trained with our dictionary-based data augmentation are competitive despite having only few or zero ground-truth labels.

In this paper, we propose a diffusion-based unsupervised framework that incorporates physically explainable Retinex theory with diffusion models for low-light image enhancement, named LightenDiffusion. Specifically, we present a content-transfer decomposition network that performs Retinex decomposition within the latent space instead of image space as in previous approaches, enabling the encoded features of unpaired low-light and normal-light images to be decomposed into content-rich reflectance maps and content-free illumination maps. Subsequently, the reflectance map of the low-light image and the illumination map of the normal-light image are taken as input to the diffusion model for unsupervised restoration with the guidance of the low-light feature, where a self-constrained consistency loss is further proposed to eliminate the interference of normal-light content on the restored results to improve overall visual quality. Extensive experiments on publicly available real-world benchmarks show that the proposed LightenDiffusion outperforms state-of-the-art unsupervised competitors and is comparable to supervised methods while being more generalizable to various scenes. Our code is available at https://github.com/JianghaiSCU/LightenDiffusion.

Metalenses offer significant potential for ultra-compact computational imaging but face challenges from complex optical degradation and computational restoration difficulties. Existing methods typically rely on precise optical calibration or massive paired datasets, which are non-trivial for real-world imaging systems. Furthermore, a lack of control over the inference process often results in undesirable hallucinated artifacts. We introduce Degradation-Modeled Multipath Diffusion for tunable metalens photography, leveraging powerful natural image priors from pretrained models instead of large datasets. Our framework uses positive, neutral, and negative-prompt paths to balance high-frequency detail generation, structural fidelity, and suppression of metalens-specific degradation, alongside pseudo data augmentation. A tunable decoder enables controlled trade-offs between fidelity and perceptual quality. Additionally, a spatially varying degradation-aware attention (SVDA) module adaptively models complex optical and sensor-induced degradation. Finally, we design and build a millimeter-scale MetaCamera for real-world validation. Extensive results show that our approach outperforms state-of-the-art methods, achieving high-fidelity and sharp image reconstruction. More materials: https://dmdiff.github.io/.

Typical quantitative MRI (qMRI) methods estimate parameter maps after image reconstructing, which is prone to biases and error propagation. We propose a Nonlinear Conjugate Gradient (NLCG) optimizer for model-based T2/T1 estimation, which incorporates U-Net regularization trained in a scan-specific manner. This end-to-end method directly estimates qMRI maps from undersampled k-space data using mono-exponential signal modeling with zero-shot scan-specific neural network regularization to enable high fidelity T1 and T2 mapping. T2 and T1 mapping results demonstrate the ability of the proposed NLCG-Net to improve estimation quality compared to subspace reconstruction at high accelerations.

As a successful deep model applied in image super-resolution (SR), the Super-Resolution Convolutional Neural Network (SRCNN) has demonstrated superior performance to the previous hand-crafted models either in speed and restoration quality. However, the high computational cost still hinders it from practical usage that demands real-time performance (24 fps). In this paper, we aim at accelerating the current SRCNN, and propose a compact hourglass-shape CNN structure for faster and better SR. We re-design the SRCNN structure mainly in three aspects. First, we introduce a deconvolution layer at the end of the network, then the mapping is learned directly from the original low-resolution image (without interpolation) to the high-resolution one. Second, we reformulate the mapping layer by shrinking the input feature dimension before mapping and expanding back afterwards. Third, we adopt smaller filter sizes but more mapping layers. The proposed model achieves a speed up of more than 40 times with even superior restoration quality. Further, we present the parameter settings that can achieve real-time performance on a generic CPU while still maintaining good performance. A corresponding transfer strategy is also proposed for fast training and testing across different upscaling factors.

With the rapid development of diffusion models and flow-based generative models, there has been a surge of interests in solving noisy linear inverse problems, e.g., super-resolution, deblurring, denoising, colorization, etc, with generative models. However, while remarkable reconstruction performances have been achieved, their inference time is typically too slow since most of them rely on the seminal diffusion posterior sampling (DPS) framework and thus to approximate the intractable likelihood score, time-consuming gradient calculation through back-propagation is needed. To address this issue, this paper provides a fast and effective solution by proposing a simple closed-form approximation to the likelihood score. For both diffusion and flow-based models, extensive experiments are conducted on various noisy linear inverse problems such as noisy super-resolution, denoising, deblurring, and colorization. In all these tasks, our method (namely DMPS) demonstrates highly competitive or even better reconstruction performances while being significantly faster than all the baseline methods.

Recently, research on denoising diffusion models has expanded its application to the field of image restoration. Traditional diffusion-based image restoration methods utilize degraded images as conditional input to effectively guide the reverse generation process, without modifying the original denoising diffusion process. However, since the degraded images already include low-frequency information, starting from Gaussian white noise will result in increased sampling steps. We propose Resfusion, a general framework that incorporates the residual term into the diffusion forward process, starting the reverse process directly from the noisy degraded images. The form of our inference process is consistent with the DDPM. We introduced a weighted residual noise, named resnoise, as the prediction target and explicitly provide the quantitative relationship between the residual term and the noise term in resnoise. By leveraging a smooth equivalence transformation, Resfusion determine the optimal acceleration step and maintains the integrity of existing noise schedules, unifying the training and inference processes. The experimental results demonstrate that Resfusion exhibits competitive performance on ISTD dataset, LOL dataset and Raindrop dataset with only five sampling steps. Furthermore, Resfusion can be easily applied to image generation and emerges with strong versatility. Our code and model are available at https://github.com/nkicsl/Resfusion.

Scene understanding under low-light conditions is a challenging problem. This is due to the small number of photons captured by the camera and the resulting low signal-to-noise ratio (SNR). Single-photon cameras (SPCs) are an emerging sensing modality that are capable of capturing images with high sensitivity. Despite having minimal read-noise, images captured by SPCs in photon-starved conditions still suffer from strong shot noise, preventing reliable scene inference. We propose photon scale-space a collection of high-SNR images spanning a wide range of photons-per-pixel (PPP) levels (but same scene content) as guides to train inference model on low photon flux images. We develop training techniques that push images with different illumination levels closer to each other in feature representation space. The key idea is that having a spectrum of different brightness levels during training enables effective guidance, and increases robustness to shot noise even in extreme noise cases. Based on the proposed approach, we demonstrate, via simulations and real experiments with a SPAD camera, high-performance on various inference tasks such as image classification and monocular depth estimation under ultra low-light, down to < 1 PPP.

We study the behavior of deterministic methods for solving inverse problems in imaging. These methods are commonly designed to achieve two goals: (1) attaining high perceptual quality, and (2) generating reconstructions that are consistent with the measurements. We provide a rigorous proof that the better a predictor satisfies these two requirements, the larger its Lipschitz constant must be, regardless of the nature of the degradation involved. In particular, to approach perfect perceptual quality and perfect consistency, the Lipschitz constant of the model must grow to infinity. This implies that such methods are necessarily more susceptible to adversarial attacks. We demonstrate our theory on single image super-resolution algorithms, addressing both noisy and noiseless settings. We also show how this undesired behavior can be leveraged to explore the posterior distribution, thereby allowing the deterministic model to imitate stochastic methods.

Deep Learning (DL) has shown remarkable results in solving inverse problems in various domains. In particular, the Tikhonet approach is very powerful to deconvolve optical astronomical images (Sureau et al. 2020). Yet, this approach only uses the ell_2 loss, which does not guarantee the preservation of physical information (e.g. flux and shape) of the object reconstructed in the image. In Nammour et al. (2021), a new loss function was proposed in the framework of sparse deconvolution, which better preserves the shape of galaxies and reduces the pixel error. In this paper, we extend Tikhonet to take into account this shape constraint, and apply our new DL method, called ShapeNet, to optical and radio-interferometry simulated data set. The originality of the paper relies on i) the shape constraint we use in the neural network framework, ii) the application of deep learning to radio-interferometry image deconvolution for the first time, and iii) the generation of a simulated radio data set that we make available for the community. A range of examples illustrates the results.

Separating and labeling each instance of a nucleus (instance-aware segmentation) is the key challenge in segmenting single cell nuclei on fluorescence microscopy images. Deep Neural Networks can learn the implicit transformation of a nuclear image into a probability map indicating the class membership of each pixel (nucleus or background), but the use of post-processing steps to turn the probability map into a labeled object mask is error-prone. This especially accounts for nuclear images of tissue sections and nuclear images across varying tissue preparations. In this work, we aim to evaluate the performance of state-of-the-art deep learning architectures to segment nuclei in fluorescence images of various tissue origins and sample preparation types without post-processing. We compare architectures that operate on pixel to pixel translation and an architecture that operates on object detection and subsequent locally applied segmentation. In addition, we propose a novel strategy to create artificial images to extend the training set. We evaluate the influence of ground truth annotation quality, image scale and segmentation complexity on segmentation performance. Results show that three out of four deep learning architectures (U-Net, U-Net with ResNet34 backbone, Mask R-CNN) can segment fluorescent nuclear images on most of the sample preparation types and tissue origins with satisfactory segmentation performance. Mask R-CNN, an architecture designed to address instance aware segmentation tasks, outperforms other architectures. Equal nuclear mean size, consistent nuclear annotations and the use of artificially generated images result in overall acceptable precision and recall across different tissues and sample preparation types.

Existing image restoration methods mostly leverage the posterior distribution of natural images. However, they often assume known degradation and also require supervised training, which restricts their adaptation to complex real applications. In this work, we propose the Generative Diffusion Prior (GDP) to effectively model the posterior distributions in an unsupervised sampling manner. GDP utilizes a pre-train denoising diffusion generative model (DDPM) for solving linear inverse, non-linear, or blind problems. Specifically, GDP systematically explores a protocol of conditional guidance, which is verified more practical than the commonly used guidance way. Furthermore, GDP is strength at optimizing the parameters of degradation model during the denoising process, achieving blind image restoration. Besides, we devise hierarchical guidance and patch-based methods, enabling the GDP to generate images of arbitrary resolutions. Experimentally, we demonstrate GDP's versatility on several image datasets for linear problems, such as super-resolution, deblurring, inpainting, and colorization, as well as non-linear and blind issues, such as low-light enhancement and HDR image recovery. GDP outperforms the current leading unsupervised methods on the diverse benchmarks in reconstruction quality and perceptual quality. Moreover, GDP also generalizes well for natural images or synthesized images with arbitrary sizes from various tasks out of the distribution of the ImageNet training set.

We propose a new method for solving imaging inverse problems using text-to-image latent diffusion models as general priors. Existing methods using latent diffusion models for inverse problems typically rely on simple null text prompts, which can lead to suboptimal performance. To address this limitation, we introduce a method for prompt tuning, which jointly optimizes the text embedding on-the-fly while running the reverse diffusion process. This allows us to generate images that are more faithful to the diffusion prior. In addition, we propose a method to keep the evolution of latent variables within the range space of the encoder, by projection. This helps to reduce image artifacts, a major problem when using latent diffusion models instead of pixel-based diffusion models. Our combined method, called P2L, outperforms both image- and latent-diffusion model-based inverse problem solvers on a variety of tasks, such as super-resolution, deblurring, and inpainting.

Benefiting from their powerful generative capabilities, pretrained diffusion models have garnered significant attention for real-world image super-resolution (Real-SR). Existing diffusion-based SR approaches typically utilize semantic information from degraded images and restoration prompts to activate prior for producing realistic high-resolution images. However, general-purpose pretrained diffusion models, not designed for restoration tasks, often have suboptimal prior, and manually defined prompts may fail to fully exploit the generated potential. To address these limitations, we introduce RAP-SR, a novel restoration prior enhancement approach in pretrained diffusion models for Real-SR. First, we develop the High-Fidelity Aesthetic Image Dataset (HFAID), curated through a Quality-Driven Aesthetic Image Selection Pipeline (QDAISP). Our dataset not only surpasses existing ones in fidelity but also excels in aesthetic quality. Second, we propose the Restoration Priors Enhancement Framework, which includes Restoration Priors Refinement (RPR) and Restoration-Oriented Prompt Optimization (ROPO) modules. RPR refines the restoration prior using the HFAID, while ROPO optimizes the unique restoration identifier, improving the quality of the resulting images. RAP-SR effectively bridges the gap between general-purpose models and the demands of Real-SR by enhancing restoration prior. Leveraging the plug-and-play nature of RAP-SR, our approach can be seamlessly integrated into existing diffusion-based SR methods, boosting their performance. Extensive experiments demonstrate its broad applicability and state-of-the-art results. Codes and datasets will be available upon acceptance.

We provide a framework for solving inverse problems with diffusion models learned from linearly corrupted data. Our method, Ambient Diffusion Posterior Sampling (A-DPS), leverages a generative model pre-trained on one type of corruption (e.g. image inpainting) to perform posterior sampling conditioned on measurements from a potentially different forward process (e.g. image blurring). We test the efficacy of our approach on standard natural image datasets (CelebA, FFHQ, and AFHQ) and we show that A-DPS can sometimes outperform models trained on clean data for several image restoration tasks in both speed and performance. We further extend the Ambient Diffusion framework to train MRI models with access only to Fourier subsampled multi-coil MRI measurements at various acceleration factors (R=2, 4, 6, 8). We again observe that models trained on highly subsampled data are better priors for solving inverse problems in the high acceleration regime than models trained on fully sampled data. We open-source our code and the trained Ambient Diffusion MRI models: https://github.com/utcsilab/ambient-diffusion-mri .

Nowadays, the Convolutional Neural Networks (CNNs) have achieved impressive performance on many computer vision related tasks, such as object detection, image recognition, image retrieval, etc. These achievements benefit from the CNNs outstanding capability to learn the input features with deep layers of neuron structures and iterative training process. However, these learned features are hard to identify and interpret from a human vision perspective, causing a lack of understanding of the CNNs internal working mechanism. To improve the CNN interpretability, the CNN visualization is well utilized as a qualitative analysis method, which translates the internal features into visually perceptible patterns. And many CNN visualization works have been proposed in the literature to interpret the CNN in perspectives of network structure, operation, and semantic concept. In this paper, we expect to provide a comprehensive survey of several representative CNN visualization methods, including Activation Maximization, Network Inversion, Deconvolutional Neural Networks (DeconvNet), and Network Dissection based visualization. These methods are presented in terms of motivations, algorithms, and experiment results. Based on these visualization methods, we also discuss their practical applications to demonstrate the significance of the CNN interpretability in areas of network design, optimization, security enhancement, etc.

MRI super-resolution (SR) and denoising tasks are fundamental challenges in the field of deep learning, which have traditionally been treated as distinct tasks with separate paired training data. In this paper, we propose an innovative method that addresses both tasks simultaneously using a single deep learning model, eliminating the need for explicitly paired noisy and clean images during training. Our proposed model is primarily trained for SR, but also exhibits remarkable noise-cleaning capabilities in the super-resolved images. Instead of conventional approaches that introduce frequency-related operations into the generative process, our novel approach involves the use of a GAN model guided by a frequency-informed discriminator. To achieve this, we harness the power of the 3D Discrete Wavelet Transform (DWT) operation as a frequency constraint within the GAN framework for the SR task on magnetic resonance imaging (MRI) data. Specifically, our contributions include: 1) a 3D generator based on residual-in-residual connected blocks; 2) the integration of the 3D DWT with 1times 1 convolution into a DWT+conv unit within a 3D Unet for the discriminator; 3) the use of the trained model for high-quality image SR, accompanied by an intrinsic denoising process. We dub the model "Denoising Induced Super-resolution GAN (DISGAN)" due to its dual effects of SR image generation and simultaneous denoising. Departing from the traditional approach of training SR and denoising tasks as separate models, our proposed DISGAN is trained only on the SR task, but also achieves exceptional performance in denoising. The model is trained on 3D MRI data from dozens of subjects from the Human Connectome Project (HCP) and further evaluated on previously unseen MRI data from subjects with brain tumours and epilepsy to assess its denoising and SR performance.

X-ray images play a vital role in the intraoperative processes due to their high resolution and fast imaging speed and greatly promote the subsequent segmentation, registration and reconstruction. However, over-dosed X-rays superimpose potential risks to human health to some extent. Data-driven algorithms from volume scans to X-ray images are restricted by the scarcity of paired X-ray and volume data. Existing methods are mainly realized by modelling the whole X-ray imaging procedure. In this study, we propose a learning-based approach termed CT2X-GAN to synthesize the X-ray images in an end-to-end manner using the content and style disentanglement from three different image domains. Our method decouples the anatomical structure information from CT scans and style information from unpaired real X-ray images/ digital reconstructed radiography (DRR) images via a series of decoupling encoders. Additionally, we introduce a novel consistency regularization term to improve the stylistic resemblance between synthesized X-ray images and real X-ray images. Meanwhile, we also impose a supervised process by computing the similarity of computed real DRR and synthesized DRR images. We further develop a pose attention module to fully strengthen the comprehensive information in the decoupled content code from CT scans, facilitating high-quality multi-view image synthesis in the lower 2D space. Extensive experiments were conducted on the publicly available CTSpine1K dataset and achieved 97.8350, 0.0842 and 3.0938 in terms of FID, KID and defined user-scored X-ray similarity, respectively. In comparison with 3D-aware methods (pi-GAN, EG3D), CT2X-GAN is superior in improving the synthesis quality and realistic to the real X-ray images.

Compressed Sensing MRI reconstructs images of the body's internal anatomy from undersampled measurements, thereby reducing scan time. Recently, deep learning has shown great potential for reconstructing high-fidelity images from highly undersampled measurements. However, one needs to train multiple models for different undersampling patterns and desired output image resolutions, since most networks operate on a fixed discretization. Such approaches are highly impractical in clinical settings, where undersampling patterns and image resolutions are frequently changed to accommodate different real-time imaging and diagnostic requirements. We propose a unified MRI reconstruction model robust to various measurement undersampling patterns and image resolutions. Our approach uses neural operators, a discretization-agnostic architecture applied in both image and measurement spaces, to capture local and global features. Empirically, our model improves SSIM by 11% and PSNR by 4 dB over a state-of-the-art CNN (End-to-End VarNet), with 600times faster inference than diffusion methods. The resolution-agnostic design also enables zero-shot super-resolution and extended field-of-view reconstruction, offering a versatile and efficient solution for clinical MR imaging. Our unified model offers a versatile solution for MRI, adapting seamlessly to various measurement undersampling and imaging resolutions, making it highly effective for flexible and reliable clinical imaging. Our code is available at https://armeet.ca/nomri.

Multiplicative noise, also known as speckle or pepper noise, commonly affects images produced by synthetic aperture radar (SAR), lasers, or optical lenses. Unlike additive noise, which typically arises from thermal processes or external factors, multiplicative noise is inherent to the system, originating from the fluctuation in diffuse reflections. These fluctuations result in multiple copies of the same signal with varying magnitudes being combined. Consequently, despeckling, or removing multiplicative noise, necessitates different techniques compared to those used for additive noise removal. In this paper, we propose a novel approach using Stochastic Differential Equations based diffusion models to address multiplicative noise. We demonstrate that multiplicative noise can be effectively modeled as a Geometric Brownian Motion process in the logarithmic domain. Utilizing the Fokker-Planck equation, we derive the corresponding reverse process for image denoising. To validate our method, we conduct extensive experiments on two different datasets, comparing our approach to both classical signal processing techniques and contemporary CNN-based noise removal models. Our results indicate that the proposed method significantly outperforms existing methods on perception-based metrics such as FID and LPIPS, while maintaining competitive performance on traditional metrics like PSNR and SSIM.

In Ultrasound Localization Microscopy (ULM),achieving high-resolution images relies on the precise localization of contrast agent particles across consecutive beam-formed frames. However, our study uncovers an enormous potential: The process of delay-and-sum beamforming leads to an irreversible reduction of Radio-Frequency (RF) data, while its implications for localization remain largely unexplored. The rich contextual information embedded within RF wavefronts, including their hyperbolic shape and phase, offers great promise for guiding Deep Neural Networks (DNNs) in challenging localization scenarios. To fully exploit this data, we propose to directly localize scatterers in RF signals. Our approach involves a custom super-resolution DNN using learned feature channel shuffling and a novel semi-global convolutional sampling block tailored for reliable and accurate wavefront localization. Additionally, we introduce a geometric point transformation that facilitates seamless mapping between RF and B-mode coordinate space. To understand the impact of beamforming on ULM, we validate the effectiveness of our method by conducting an extensive comparison with State-Of-The-Art (SOTA) techniques. We present the inaugural in vivo results from an RF-trained DNN, highlighting its real-world practicality. Our findings show that RF-ULM bridges the domain gap between synthetic and real datasets, offering a considerable advantage in terms of precision and complexity. To enable the broader research community to benefit from our findings, our code and the associated SOTA methods are made available at https://github.com/hahnec/rf-ulm.

Regularization of inverse problems is of paramount importance in computational imaging. The ability of neural networks to learn efficient image representations has been recently exploited to design powerful data-driven regularizers. While state-of-the-art plug-and-play (PnP) methods rely on an implicit regularization provided by neural denoisers, alternative Bayesian approaches consider Maximum A Posteriori (MAP) estimation in the latent space of a generative model, thus with an explicit regularization. However, state-of-the-art deep generative models require a huge amount of training data compared to denoisers. Besides, their complexity hampers the optimization involved in latent MAP derivation. In this work, we first propose to use compressive autoencoders instead. These networks, which can be seen as variational autoencoders with a flexible latent prior, are smaller and easier to train than state-of-the-art generative models. As a second contribution, we introduce the Variational Bayes Latent Estimation (VBLE) algorithm, which performs latent estimation within the framework of variational inference. Thanks to a simple yet efficient parameterization of the variational posterior, VBLE allows for fast and easy (approximate) posterior sampling. Experimental results on image datasets BSD and FFHQ demonstrate that VBLE reaches similar performance as state-of-the-art PnP methods, while being able to quantify uncertainties significantly faster than other existing posterior sampling techniques. The code associated to this paper is available in https://github.com/MaudBqrd/VBLE.

Computational microscopy, in which hardware and algorithms of an imaging system are jointly designed, shows promise for making imaging systems that cost less, perform more robustly, and collect new types of information. Often, the performance of computational imaging systems, especially those that incorporate machine learning, is sample-dependent. Thus, standardized datasets are an essential tool for comparing the performance of different approaches. Here, we introduce the Berkeley Single Cell Computational Microscopy (BSCCM) dataset, which contains over ~12,000,000 images of 400,000 of individual white blood cells. The dataset contains images captured with multiple illumination patterns on an LED array microscope and fluorescent measurements of the abundance of surface proteins that mark different cell types. We hope this dataset will provide a valuable resource for the development and testing of new algorithms in computational microscopy and computer vision with practical biomedical applications.

The solution of linear inverse problems arising, for example, in signal and image processing is a challenging problem since the ill-conditioning amplifies, in the solution, the noise present in the data. Recently introduced algorithms based on deep learning overwhelm the more traditional model-based approaches in performance, but they typically suffer from instability with respect to data perturbation. In this paper, we theoretically analyze the trade-off between stability and accuracy of neural networks, when used to solve linear imaging inverse problems for not under-determined cases. Moreover, we propose different supervised and unsupervised solutions to increase the network stability and maintain a good accuracy, by means of regularization properties inherited from a model-based iterative scheme during the network training and pre-processing stabilizing operator in the neural networks. Extensive numerical experiments on image deblurring confirm the theoretical results and the effectiveness of the proposed deep learning-based approaches to handle noise on the data.

Precise segmentation of brain tumors, particularly contrast-enhancing regions visible in post-contrast MRI (areas highlighted by contrast agent injection), is crucial for accurate clinical diagnosis and treatment planning but remains challenging. However, current methods exhibit notable performance degradation in segmenting these enhancing brain tumor areas, largely due to insufficient consideration of MRI-specific tumor features such as complex textures and directional variations. To address this, we propose the Harmonized Frequency Fusion Network (HFF-Net), which rethinks brain tumor segmentation from a frequency-domain perspective. To comprehensively characterize tumor regions, we develop a Frequency Domain Decomposition (FDD) module that separates MRI images into low-frequency components, capturing smooth tumor contours and high-frequency components, highlighting detailed textures and directional edges. To further enhance sensitivity to tumor boundaries, we introduce an Adaptive Laplacian Convolution (ALC) module that adaptively emphasizes critical high-frequency details using dynamically updated convolution kernels. To effectively fuse tumor features across multiple scales, we design a Frequency Domain Cross-Attention (FDCA) integrating semantic, positional, and slice-specific information. We further validate and interpret frequency-domain improvements through visualization, theoretical reasoning, and experimental analyses. Extensive experiments on four public datasets demonstrate that HFF-Net achieves an average relative improvement of 4.48\% (ranging from 2.39\% to 7.72\%) in the mean Dice scores across the three major subregions, and an average relative improvement of 7.33% (ranging from 5.96% to 8.64%) in the segmentation of contrast-enhancing tumor regions, while maintaining favorable computational efficiency and clinical applicability. Code: https://github.com/VinyehShaw/HFF.

Satellite optical images, upon their on-ground receipt, offer a distorted view of the observed scene. Their restoration, including denoising, deblurring, and sometimes super-resolution, is required before their exploitation. Moreover, quantifying the uncertainties related to this restoration helps to reduce the risks of misinterpreting the image content. Deep learning methods are now state-of-the-art for satellite image restoration. Among them, direct inversion methods train a specific network for each sensor, and generally provide a point estimation of the restored image without the associated uncertainties. Alternatively, deep regularization (DR) methods learn a deep prior on target images before plugging it, as the regularization term, into a model-based optimization scheme. This allows for restoring images from several sensors with a single network and possibly for estimating associated uncertainties. In this paper, we introduce VBLE-xz, a DR method that solves the inverse problem in the latent space of a variational compressive autoencoder (CAE). We adapt the regularization strength by modulating the bitrate of the trained CAE with a training-free approach. Then, VBLE-xz estimates relevant uncertainties jointly in the latent and in the image spaces by sampling an explicit posterior estimated within variational inference. This enables fast posterior sampling, unlike state-of-the-art DR methods that use Markov chains or diffusion-based approaches. We conduct a comprehensive set of experiments on very high-resolution simulated and real Pléiades images, asserting the performance, robustness and scalability of the proposed method. They demonstrate that VBLE-xz represents a compelling alternative to direct inversion methods when uncertainty quantification is required. The code associated to this paper is available in https://github.com/MaudBqrd/VBLExz.

Low-light raw denoising is an important and valuable task in computational photography where learning-based methods trained with paired real data are mainstream. However, the limited data volume and complicated noise distribution have constituted a learnability bottleneck for paired real data, which limits the denoising performance of learning-based methods. To address this issue, we present a learnability enhancement strategy to reform paired real data according to noise modeling. Our strategy consists of two efficient techniques: shot noise augmentation (SNA) and dark shading correction (DSC). Through noise model decoupling, SNA improves the precision of data mapping by increasing the data volume and DSC reduces the complexity of data mapping by reducing the noise complexity. Extensive results on the public datasets and real imaging scenarios collectively demonstrate the state-of-the-art performance of our method. Our code is available at: https://github.com/megvii-research/PMN.

Current diffusion-based image restoration methods feed degraded input images as conditions into the noise estimation network. However, interpreting this diffusion process is challenging since it essentially generates the target image from the noise. To establish a unified and more interpretable model for image generation and restoration, we propose residual denoising diffusion models (RDDM). In contrast to existing diffusion models (e.g., DDPM or DDIM) that focus solely on noise estimation, our RDDM predicts residuals to represent directional diffusion from the target domain to the input domain, while concurrently estimating noise to account for random perturbations in the diffusion process. The introduction of residuals allows us to redefine the forward diffusion process, wherein the target image progressively diffuses into a purely noisy image or a noise-carrying input image, thus unifying image generation and restoration. We demonstrate that our sampling process is consistent with that of DDPM and DDIM through coefficient transformation, and propose a partially path-independent generation process to better understand the reverse process. Notably, with native support for conditional inputs, our RDDM enables a generic UNet, trained with only an ell _1 loss and a batch size of 1, to compete with state-of-the-art image restoration methods. We provide code and pre-trained models to encourage further exploration, application, and development of our innovative framework (https://github.com/nachifur/RDDM).

Reinterpretable cameras are defined by their post-processing capabilities that exceed traditional imaging. We present "SoDaCam" that provides reinterpretable cameras at the granularity of photons, from photon-cubes acquired by single-photon devices. Photon-cubes represent the spatio-temporal detections of photons as a sequence of binary frames, at frame-rates as high as 100 kHz. We show that simple transformations of the photon-cube, or photon-cube projections, provide the functionality of numerous imaging systems including: exposure bracketing, flutter shutter cameras, video compressive systems, event cameras, and even cameras that move during exposure. Our photon-cube projections offer the flexibility of being software-defined constructs that are only limited by what is computable, and shot-noise. We exploit this flexibility to provide new capabilities for the emulated cameras. As an added benefit, our projections provide camera-dependent compression of photon-cubes, which we demonstrate using an implementation of our projections on a novel compute architecture that is designed for single-photon imaging.

The flat lensless camera design reduces the camera size and weight significantly. In this design, the camera lens is replaced by another optical element that interferes with the incoming light. The image is recovered from the raw sensor measurements using a reconstruction algorithm. Yet, the quality of the reconstructed images is not satisfactory. To mitigate this, we propose utilizing a pre-trained diffusion model with a control network and a learned separable transformation for reconstruction. This allows us to build a prototype flat camera with high-quality imaging, presenting state-of-the-art results in both terms of quality and perceptuality. We demonstrate its ability to leverage also textual descriptions of the captured scene to further enhance reconstruction. Our reconstruction method which leverages the strong capabilities of a pre-trained diffusion model can be used in other imaging systems for improved reconstruction results.

Diffusion-based image restoration (IR) methods aim to use diffusion models to recover high-quality (HQ) images from degraded images and achieve promising performance. Due to the inherent property of diffusion models, most of these methods need long serial sampling chains to restore HQ images step-by-step. As a result, it leads to expensive sampling time and high computation costs. Moreover, such long sampling chains hinder understanding the relationship between the restoration results and the inputs since it is hard to compute the gradients in the whole chains. In this work, we aim to rethink the diffusion-based IR models through a different perspective, i.e., a deep equilibrium (DEQ) fixed point system. Specifically, we derive an analytical solution by modeling the entire sampling chain in diffusion-based IR models as a joint multivariate fixed point system. With the help of the analytical solution, we are able to conduct single-image sampling in a parallel way and restore HQ images without training. Furthermore, we compute fast gradients in DEQ and found that initialization optimization can boost performance and control the generation direction. Extensive experiments on benchmarks demonstrate the effectiveness of our proposed method on typical IR tasks and real-world settings. The code and models will be made publicly available.

Effective denoising is crucial in low-dose CT to enhance subtle structures and low-contrast lesions while preventing diagnostic errors. Supervised methods struggle with limited paired datasets, and self-supervised approaches often require multiple noisy images and rely on deep networks like U-Net, offering little insight into the denoising mechanism. To address these challenges, we propose an interpretable self-supervised single-image denoising framework -- Filter2Noise (F2N). Our approach introduces an Attention-Guided Bilateral Filter that adapted to each noisy input through a lightweight module that predicts spatially varying filter parameters, which can be visualized and adjusted post-training for user-controlled denoising in specific regions of interest. To enable single-image training, we introduce a novel downsampling shuffle strategy with a new self-supervised loss function that extends the concept of Noise2Noise to a single image and addresses spatially correlated noise. On the Mayo Clinic 2016 low-dose CT dataset, F2N outperforms the leading self-supervised single-image method (ZS-N2N) by 4.59 dB PSNR while improving transparency, user control, and parametric efficiency. These features provide key advantages for medical applications that require precise and interpretable noise reduction. Our code is demonstrated at https://github.com/sypsyp97/Filter2Noise.git .

Structured illumination microscopy (SIM) has become an important technique for optical super-resolution imaging because it allows a doubling of image resolution at speeds compatible for live-cell imaging. However, the reconstruction of SIM images is often slow and prone to artefacts. Here we propose a versatile reconstruction method, ML-SIM, which makes use of machine learning. The model is an end-to-end deep residual neural network that is trained on a simulated data set to be free of common SIM artefacts. ML-SIM is thus robust to noise and irregularities in the illumination patterns of the raw SIM input frames. The reconstruction method is widely applicable and does not require the acquisition of experimental training data. Since the training data are generated from simulations of the SIM process on images from generic libraries the method can be efficiently adapted to specific experimental SIM implementations. The reconstruction quality enabled by our method is compared with traditional SIM reconstruction methods, and we demonstrate advantages in terms of noise, reconstruction fidelity and contrast for both simulated and experimental inputs. In addition, reconstruction of one SIM frame typically only takes ~100ms to perform on PCs with modern Nvidia graphics cards, making the technique compatible with real-time imaging. The full implementation and the trained networks are available at http://ML-SIM.com.

Denoising diffusion models, a class of generative models, have garnered immense interest lately in various deep-learning problems. A diffusion probabilistic model defines a forward diffusion stage where the input data is gradually perturbed over several steps by adding Gaussian noise and then learns to reverse the diffusion process to retrieve the desired noise-free data from noisy data samples. Diffusion models are widely appreciated for their strong mode coverage and quality of the generated samples despite their known computational burdens. Capitalizing on the advances in computer vision, the field of medical imaging has also observed a growing interest in diffusion models. To help the researcher navigate this profusion, this survey intends to provide a comprehensive overview of diffusion models in the discipline of medical image analysis. Specifically, we introduce the solid theoretical foundation and fundamental concepts behind diffusion models and the three generic diffusion modelling frameworks: diffusion probabilistic models, noise-conditioned score networks, and stochastic differential equations. Then, we provide a systematic taxonomy of diffusion models in the medical domain and propose a multi-perspective categorization based on their application, imaging modality, organ of interest, and algorithms. To this end, we cover extensive applications of diffusion models in the medical domain. Furthermore, we emphasize the practical use case of some selected approaches, and then we discuss the limitations of the diffusion models in the medical domain and propose several directions to fulfill the demands of this field. Finally, we gather the overviewed studies with their available open-source implementations at https://github.com/amirhossein-kz/Awesome-Diffusion-Models-in-Medical-Imaging.

The rise of imaging techniques such as optical coherence tomography (OCT) and advances in deep learning (DL) have enabled clinicians and researchers to streamline retinal disease staging. A popular DL approach is self-supervised learning (SSL), where models learn from vast amounts of unlabeled data, avoiding costly annotation. SSL has allowed the development of foundation models (FMs), large models that can be used for a variety of downstream tasks. However, existing FMs for OCT, trained solely on image data, lack a comprehensive and robust semantic understanding of images, as evidenced by their downstream performance (especially for complex tasks), and thus require supervised fine-tuning (which may be unfeasible) to better adapt to specific applications and populations. To address this, we propose RetFiner, an SSL vision-language refinement scheme that improves the representations of existing FMs and enables their efficient and direct adaptation to specific populations for improved downstream performance. Our method uses a diverse set of training objectives which take advantage of the rich supervisory signal found in textual data. We tested RetFiner on the retinal FMs RETFound, UrFound, and VisionFM, showing significant improvements in linear probing performance on seven highly diverse OCT classification tasks, with an average increase of 5.8, 3.9, and 2.1 percentage points over their baselines, respectively. Our code and model weights are publicly available at https://github.com/ronnief1/RetFiner.

Underwater image restoration algorithms seek to restore the color, contrast, and appearance of a scene that is imaged underwater. They are a critical tool in applications ranging from marine ecology and aquaculture to underwater construction and archaeology. While existing pixel-domain diffusion-based image restoration approaches are effective at restoring simple scenes with limited depth variation, they are computationally intensive and often generate unrealistic artifacts when applied to scenes with complex geometry and significant depth variation. In this work we overcome these limitations by combining a novel network architecture (SLURPP) with an accurate synthetic data generation pipeline. SLURPP combines pretrained latent diffusion models -- which encode strong priors on the geometry and depth of scenes -- with an explicit scene decomposition -- which allows one to model and account for the effects of light attenuation and backscattering. To train SLURPP we design a physics-based underwater image synthesis pipeline that applies varied and realistic underwater degradation effects to existing terrestrial image datasets. This approach enables the generation of diverse training data with dense medium/degradation annotations. We evaluate our method extensively on both synthetic and real-world benchmarks and demonstrate state-of-the-art performance. Notably, SLURPP is over 200X faster than existing diffusion-based methods while offering ~ 3 dB improvement in PSNR on synthetic benchmarks. It also offers compelling qualitative improvements on real-world data. Project website https://tianfwang.github.io/slurpp/.