No Arabic abstract
Optical Coherence Tomography Angiography (OCTA) is a non-invasive and non-contacting imaging technique providing visualization of microvasculature of retina and optic nerve head in human eyes in vivo. The adequate image quality of OCTA is the prerequisite for the subsequent quantification of retinal microvasculature. Traditionally, the image quality score based on signal strength is used for discriminating low quality. However, it is insufficient for identifying artefacts such as motion and off-centration, which rely specialized knowledge and need tedious and time-consuming manual identification. One of the most primary issues in OCTA analysis is to sort out the foveal avascular zone (FAZ) region in the retina, which highly correlates with any visual acuity disease. However, the variations in OCTA visual quality affect the performance of deep learning in any downstream marginally. Moreover, filtering the low-quality OCTA images out is both labor-intensive and time-consuming. To address these issues, we develop an automated computer-aided OCTA image processing system using deep neural networks as the classifier and segmentor to help ophthalmologists in clinical diagnosis and research. This system can be an assistive tool as it can process OCTA images of different formats to assess the quality and segment the FAZ area. The source code is freely available at https://github.com/shanzha09/COIPS.git. Another major contribution is the large-scale OCTA dataset, namely OCTA-25K-IQA-SEG we publicize for performance evaluation. It is comprised of four subsets, namely sOCTA-3$times$3-10k, sOCTA-6$times$6-14k, sOCTA-3$times$3-1.1k-seg, and dOCTA-6$times$6-1.1k-seg, which contains a total number of 25,665 images. The large-scale OCTA dataset is available at https://doi.org/10.5281/zenodo.5111975, https://doi.org/10.5281/zenodo.5111972.
Image quality assessment (IQA) is the key factor for the fast development of image restoration (IR) algorithms. The most recent IR methods based on Generative Adversarial Networks (GANs) have achieved significant improvement in visual performance, but also presented great challenges for quantitative evaluation. Notably, we observe an increasing inconsistency between perceptual quality and the evaluation results. Then we raise two questions: (1) Can existing IQA methods objectively evaluate recent IR algorithms? (2) When focus on beating current benchmarks, are we getting better IR algorithms? To answer these questions and promote the development of IQA methods, we contribute a large-scale IQA dataset, called Perceptual Image Processing Algorithms (PIPAL) dataset. Especially, this dataset includes the results of GAN-based methods, which are missing in previous datasets. We collect more than 1.13 million human judgments to assign subjective scores for PIPAL images using the more reliable Elo system. Based on PIPAL, we present new benchmarks for both IQA and super-resolution methods. Our results indicate that existing IQA methods cannot fairly evaluate GAN-based IR algorithms. While using appropriate evaluation methods is important, IQA methods should also be updated along with the development of IR algorithms. At last, we improve the performance of IQA networks on GAN-based distortions by introducing anti-aliasing pooling. Experiments show the effectiveness of the proposed method.
Image quality assessment (IQA) is the key factor for the fast development of image restoration (IR) algorithms. The most recent perceptual IR algorithms based on generative adversarial networks (GANs) have brought in significant improvement on visual performance, but also pose great challenges for quantitative evaluation. Notably, we observe an increasing inconsistency between perceptual quality and the evaluation results. We present two questions: Can existing IQA methods objectively evaluate recent IR algorithms? With the focus on beating current benchmarks, are we getting better IR algorithms? To answer the questions and promote the development of IQA methods, we contribute a large-scale IQA dataset, called Perceptual Image Processing ALgorithms (PIPAL) dataset. Especially, this dataset includes the results of GAN-based IR algorithms, which are missing in previous datasets. We collect more than 1.13 million human judgments to assign subjective scores for PIPAL images using the more reliable Elo system. Based on PIPAL, we present new benchmarks for both IQA and SR methods. Our results indicate that existing IQA methods cannot fairly evaluate GAN-based IR algorithms. While using appropriate evaluation methods is important, IQA methods should also be updated along with the development of IR algorithms. At last, we shed light on how to improve the IQA performance on GAN-based distortion. Inspired by the find that the existing IQA methods have an unsatisfactory performance on the GAN-based distortion partially because of their low tolerance to spatial misalignment, we propose to improve the performance of an IQA network on GAN-based distortion by explicitly considering this misalignment. We propose the Space Warping Difference Network, which includes the novel l_2 pooling layers and Space Warping Difference layers. Experiments demonstrate the effectiveness of the proposed method.
Automated vascular segmentation on optical coherence tomography angiography (OCTA) is important for the quantitative analyses of retinal microvasculature in neuroretinal and systemic diseases. Despite recent improvements, artifacts continue to pose challenges in segmentation. Our study focused on removing the speckle noise artifact from OCTA images when performing segmentation. Speckle noise is common in OCTA and is particularly prominent over large non-perfusion areas. It may interfere with the proper assessment of retinal vasculature. In this study, we proposed a novel Supervision Vessel Segmentation network (SVS-net) to detect vessels of different sizes. The SVS-net includes a new attention-based module to describe vessel positions and facilitate the understanding of the network learning process. The model is efficient and explainable and could be utilized to reduce the need for manual labeling. Our SVS-net had better performance in accuracy, recall, F1 score, and Kappa score when compared to other well recognized models.
Type-B Aortic Dissection (TBAD) is one of the most serious cardiovascular events characterized by a growing yearly incidence,and the severity of disease prognosis. Currently, computed tomography angiography (CTA) has been widely adopted for the diagnosis and prognosis of TBAD. Accurate segmentation of true lumen (TL), false lumen (FL), and false lumen thrombus (FLT) in CTA are crucial for the precise quantification of anatomical features. However, existing works only focus on only TL and FL without considering FLT. In this paper, we propose ImageTBAD, the first 3D computed tomography angiography (CTA) image dataset of TBAD with annotation of TL, FL, and FLT. The proposed dataset contains 100 TBAD CTA images, which is of decent size compared with existing medical imaging datasets. As FLT can appear almost anywhere along the aorta with irregular shapes, segmentation of FLT presents a wide class of segmentation problems where targets exist in a variety of positions with irregular shapes. We further propose a baseline method for automatic segmentation of TBAD. Results show that the baseline method can achieve comparable results with existing works on aorta and TL segmentation. However, the segmentation accuracy of FLT is only 52%, which leaves large room for improvement and also shows the challenge of our dataset. To facilitate further research on this challenging problem, our dataset and codes are released to the public.
Automated medical image segmentation is an important step in many medical procedures. Recently, deep learning networks have been widely used for various medical image segmentation tasks, with U-Net and generative adversarial nets (GANs) being some of the commonly used ones. Foreground-background class imbalance is a common occurrence in medical images, and U-Net has difficulty in handling class imbalance because of its cross entropy (CE) objective function. Similarly, GAN also suffers from class imbalance because the discriminator looks at the entire image to classify it as real or fake. Since the discriminator is essentially a deep learning classifier, it is incapable of correctly identifying minor changes in small structures. To address these issues, we propose a novel context based CE loss function for U-Net, and a novel architecture Seg-GLGAN. The context based CE is a linear combination of CE obtained over the entire image and its region of interest (ROI). In Seg-GLGAN, we introduce a novel context discriminator to which the entire image and its ROI are fed as input, thus enforcing local context. We conduct extensive experiments using two challenging unbalanced datasets: PROMISE12 and ACDC. We observe that segmentation results obtained from our methods give better segmentation metrics as compared to various baseline methods.