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Microscopy Image Restoration with Deep Wiener-Kolmogorov filters

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 Added by Valeriya Pronina
 Publication date 2019
and research's language is English




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Microscopy is a powerful visualization tool in biology, enabling the study of cells, tissues, and the fundamental biological processes; yet, the observed images typically suffer from blur and background noise. In this work, we propose a unifying framework of algorithms for Gaussian image deblurring and denoising. These algorithms are based on deep learning techniques for the design of learnable regularizers integrated into the Wiener-Kolmogorov filter. Our extensive experimentation line showcases that the proposed approach achieves a superior quality of image reconstruction and surpasses the solutions that rely either on deep learning or on optimization schemes alone. Augmented with the variance stabilizing transformation, the proposed reconstruction pipeline can also be successfully applied to the problem of Poisson image deblurring, surpassing the state-of-the-art methods. Moreover, several variants of the proposed framework demonstrate competitive performance at low computational complexity, which is of high importance for real-time imaging applications.



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Image restoration has seen great progress in the last years thanks to the advances in deep neural networks. Most of these existing techniques are trained using full supervision with suitable image pairs to tackle a specific degradation. However, in a blind setting with unknown degradations this is not possible and a good prior remains crucial. Recently, neural network based approaches have been proposed to model such priors by leveraging either denoising autoencoders or the implicit regularization captured by the neural network structure itself. In contrast to this, we propose using normalizing flows to model the distribution of the target content and to use this as a prior in a maximum a posteriori (MAP) formulation. By expressing the MAP optimization process in the latent space through the learned bijective mapping, we are able to obtain solutions through gradient descent. To the best of our knowledge, this is the first work that explores normalizing flows as prior in image enhancement problems. Furthermore, we present experimental results for a number of different degradations on data sets varying in complexity and show competitive results when comparing with the deep image prior approach.
Deep neural networks (DNNs) have achieved significant success in image restoration tasks by directly learning a powerful non-linear mapping from corrupted images to their latent clean ones. However, there still exist two major limitations for these deep learning (DL)-based methods. Firstly, the noises contained in real corrupted images are very complex, usually neglected and largely under-estimated in most current methods. Secondly, existing DL methods are mostly trained on one pre-assumed degradation process for all of the training image pairs, such as the widely used bicubic downsampling assumption in the image super-resolution task, inevitably leading to poor generalization performance when the true degradation does not match with such assumed one. To address these issues, we propose a unified generative model for the image restoration, which elaborately configures the degradation process from the latent clean image to the observed corrupted one. Specifically, different from most of current methods, the pixel-wisely non-i.i.d. Gaussian distribution, being with more flexibility, is adopted in our method to fit the complex real noises. Furthermore, the method is built on the general image degradation process, making it capable of adapting diverse degradations under one single model. Besides, we design a variational inference algorithm to learn all parameters involved in the proposed model with explicit form of objective loss. Specifically, beyond traditional variational methodology, two DNNs are employed to parameterize the posteriori distributions, one to infer the distribution of the latent clean image, and another to infer the distribution of the image noise. Extensive experiments demonstrate the superiority of the proposed method on three classical image restoration tasks, including image denoising, image super-resolution and JPEG image deblocking.
State-of-the-art approaches toward image restoration can be classified into model-based and learning-based. The former - best represented by sparse coding techniques - strive to exploit intrinsic prior knowledge about the unknown high-resolution images; while the latter - popularized by recently developed deep learning techniques - leverage external image prior from some training dataset. It is natural to explore their middle ground and pursue a hybrid image prior capable of achieving the best in both worlds. In this paper, we propose a systematic approach of achieving this goal called Structured Analysis Sparse Coding (SASC). Specifically, a structured sparse prior is learned from extrinsic training data via a deep convolutional neural network (in a similar way to previous learning-based approaches); meantime another structured sparse prior is internally estimated from the input observation image (similar to previous model-based approaches). Two structured sparse priors will then be combined to produce a hybrid prior incorporating the knowledge from both domains. To manage the computational complexity, we have developed a novel framework of implementing hybrid structured sparse coding processes by deep convolutional neural networks. Experimental results show that the proposed hybrid image restoration method performs comparably with and often better than the current state-of-the-art techniques.
Images obtained in real-world low-light conditions are not only low in brightness, but they also suffer from many other types of degradation, such as color bias, unknown noise, detail loss and halo artifacts. In this paper, we propose a very fast deep learning framework called Bringing the Lightness (denoted as BLNet) that consists of two U-Nets with a series of well-designed loss functions to tackle all of the above degradations. Based on Retinex Theory, the decomposition net in our model can decompose low-light images into reflectance and illumination and remove noise in the reflectance during the decomposition phase. We propose a Noise and Color Bias Control module (NCBC Module) that contains a convolutional neural network and two loss functions (noise loss and color loss). This module is only used to calculate the loss functions during the training phase, so our method is very fast during the test phase. This module can smooth the reflectance to achieve the purpose of noise removal while preserving details and edge information and controlling color bias. We propose a network that can be trained to learn the mapping between low-light and normal-light illumination and enhance the brightness of images taken in low-light illumination. We train and evaluate the performance of our proposed model over the real-world Low-Light (LOL) dataset), and we also test our model over several other frequently used datasets (LIME, DICM and MEF datasets). We conduct extensive experiments to demonstrate that our approach achieves a promising effect with good rubustness and generalization and outperforms many other state-of-the-art methods qualitatively and quantitatively. Our method achieves high speed because we use loss functions instead of introducing additional denoisers for noise removal and color correction. The code and model are available at https://github.com/weixinxu666/BLNet.
Image restoration is a long-standing low-level vision problem that aims to restore high-quality images from low-quality images (e.g., downscaled, noisy and compressed images). While state-of-the-art image restoration methods are based on convolutional neural networks, few attempts have been made with Transformers which show impressive performance on high-level vision tasks. In this paper, we propose a strong baseline model SwinIR for image restoration based on the Swin Transformer. SwinIR consists of three parts: shallow feature extraction, deep feature extraction and high-quality image reconstruction. In particular, the deep feature extraction module is composed of several residual Swin Transformer blocks (RSTB), each of which has several Swin Transformer layers together with a residual connection. We conduct experiments on three representative tasks: image super-resolution (including classical, lightweight and real-world image super-resolution), image denoising (including grayscale and color image denoising) and JPEG compression artifact reduction. Experimental results demonstrate that SwinIR outperforms state-of-the-art methods on different tasks by $textbf{up to 0.14$sim$0.45dB}$, while the total number of parameters can be reduced by $textbf{up to 67%}$.
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