A deep learning framework for quality assessment and restoration in video endoscopy

Endoscopy is a routine imaging technique used for both diagnosis and minimally invasive surgical treatment. Artifacts such as motion blur, bubbles, specular reflections, floating objects and pixel saturation impede the visual interpretation and the automated analysis of endoscopy videos. Given the widespread use of endoscopy in different clinical applications, we contend that the robust and reliable identification of such artifacts and the automated restoration of corrupted video frames is a fundamental medical imaging problem. Existing state-of-the-art methods only deal with the detection and restoration of selected artifacts. However, typically endoscopy videos contain numerous artifacts which motivates to establish a comprehensive solution. We propose a fully automatic framework that can: 1) detect and classify six different primary artifacts, 2) provide a quality score for each frame and 3) restore mildly corrupted frames. To detect different artifacts our framework exploits fast multi-scale, single stage convolutional neural network detector. We introduce a quality metric to assess frame quality and predict image restoration success. Generative adversarial networks with carefully chosen regularization are finally used to restore corrupted frames. Our detector yields the highest mean average precision (mAP at 5% threshold) of 49.0 and the lowest computational time of 88 ms allowing for accurate real-time processing. Our restoration models for blind deblurring, saturation correction and inpainting demonstrate significant improvements over previous methods. On a set of 10 test videos we show that our approach preserves an average of 68.7% which is 25% more frames than that retained from the raw videos.Comment: 14 page

LLCaps: Learning to Illuminate Low-Light Capsule Endoscopy with Curved Wavelet Attention and Reverse Diffusion

Wireless capsule endoscopy (WCE) is a painless and non-invasive diagnostic tool for gastrointestinal (GI) diseases. However, due to GI anatomical constraints and hardware manufacturing limitations, WCE vision signals may suffer from insufficient illumination, leading to a complicated screening and examination procedure. Deep learning-based low-light image enhancement (LLIE) in the medical field gradually attracts researchers. Given the exuberant development of the denoising diffusion probabilistic model (DDPM) in computer vision, we introduce a WCE LLIE framework based on the multi-scale convolutional neural network (CNN) and reverse diffusion process. The multi-scale design allows models to preserve high-resolution representation and context information from low-resolution, while the curved wavelet attention (CWA) block is proposed for high-frequency and local feature learning. Furthermore, we combine the reverse diffusion procedure to further optimize the shallow output and generate the most realistic image. The proposed method is compared with ten state-of-the-art (SOTA) LLIE methods and significantly outperforms quantitatively and qualitatively. The superior performance on GI disease segmentation further demonstrates the clinical potential of our proposed model. Our code is publicly accessible.Comment: To appear in MICCAI 2023. Code availability: https://github.com/longbai1006/LLCap

Online Super-Resolution For Fibre-Bundle-Based Confocal Laser Endomicroscopy

Probe-based Confocal Laser Endomicroscopy (pCLE) produces microscopic images enabling real-time in vivo optical biopsy. However, the miniaturisation of the optical hardware, specifically the reliance on an optical fibre bundle as an imaging guide, fundamentally limits image quality by producing artefacts, noise, and relatively low contrast and resolution. The reconstruction approaches in clinical pCLE products do not fully alleviate these problems. Consequently, image quality remains a barrier that curbs the full potential of pCLE. Enhancing the image quality of pCLE in real-time remains a challenge. The research in this thesis is a response to this need. I have developed dedicated online super-resolution methods that account for the physics of the image acquisition process. These methods have the potential to replace existing reconstruction algorithms without interfering with the fibre design or the hardware of the device. In this thesis, novel processing pipelines are proposed for enhancing the image quality of pCLE. First, I explored a learning-based super-resolution method that relies on mapping from the low to the high-resolution space. Due to the lack of high-resolution pCLE, I proposed to simulate high-resolution data and use it as a ground truth model that is based on the pCLE acquisition physics. However, pCLE images are reconstructed from irregularly distributed fibre signals, and grid-based Convolutional Neural Networks are not designed to take irregular data as input. To alleviate this problem, I designed a new trainable layer that embeds Nadaraya- Watson regression. Finally, I proposed a novel blind super-resolution approach by deploying unsupervised zero-shot learning accompanied by a down-sampling kernel crafted for pCLE. I evaluated these new methods in two ways: a robust image quality assessment and a perceptual quality test assessed by clinical experts. The results demonstrate that the proposed super-resolution pipelines are superior to the current reconstruction algorithm in terms of image quality and clinician preference

Endoscopic Vision Augmentation Using Multiscale Bilateral-Weighted Retinex for Robotic Surgery

医疗机器人手术视觉是微创外科手术成功与否的关键所在。由于手术器械医学电子内镜自身内在的局限性，导致了手术视野不清晰、光照不均、多烟雾等诸多问题，使得外科医生无法准确快速感知与识别人体内部器官中的神经血管以及病灶位置等结构信息，这无疑增加了手术风险和手术时间。针对这些手术视觉问题，本论文提出了一种基于双边滤波权重分析的多尺度Retinex模型方法，对达芬奇医疗机器人手术过程中所采集到的病患视频进行处理与分析。经过外科医生对实验结果的主观评价，一致认为该方法能够大幅度地增强手术视野质量；同时客观评价实验结果表明本论文所提出方法优于目前计算机视觉领域内的图像增强与恢复方法。 厦门大学信息科学与技术学院计算机科学系罗雄彪教授为本文第一作者。【Abstract】Endoscopic vision plays a significant role in minimally invasive surgical procedures. The visibility and maintenance of such direct in-situ vision is paramount not only for safety by preventing inadvertent injury, but also to improve precision and reduce operating time. Unfortunately, endoscopic vision is unavoidably degraded due to illumination variations during surgery. This work aims to restore or augment such degraded visualization and quantitatively evaluate it during robotic surgery. A multiscale bilateral-weighted retinex method is proposed to remove non-uniform and highly directional illumination and enhance surgical vision, while an objective noreference image visibility assessment method is defined in terms of sharpness, naturalness, and contrast, to quantitatively and objectively evaluate endoscopic visualization on surgical video sequences. The methods were validated on surgical data, with the experimental results showing that our method outperforms existent retinex approaches. In particular, the combined visibility was improved from 0.81 to 1.06, while three surgeons generally agreed that the results were restored with much better visibility.The authors thank the assistance of Dr. Stephen Pautler for facilitating the data acquisition, Dr. A. Jonathan McLeod and Dr.Uditha Jayarathne for helpful discussions

Transfer Learning Based Deep Neural Network for Detecting Artefacts in Endoscopic Images

Endoscopy is typically used to visualize various parts of the digestive tract. The technique is well suited to detect abnormalities like cancer/polyp, taking sample tissue called a biopsy, or cauterizing a bleeding vessel. During the procedure, video/ images are generated. It is affected by eight different artefacts: saturation, specularity, blood, blur, bubbles, contrast, instrument and miscellaneous artefacts like floating debris, chromatic aberration etc. The frames affected by artefacts are mostly discarded as the clinician could extract no valuable information from them. It affects post-processing steps. Based on the transfer learning approach, three state-of-the-art deep learning models, namely YOLOv3, YOLOv4 and Faster R-CNN, were trained with images from EAD public datasets and a custom dataset of endoscopic images of Indian patients annotated for artefacts mentioned above. The training set of images are data augmented and used to train all the three-artefact detectors. The predictions of the artefact detectors are combined to form an ensemble model whose results outperformed well compared to existing literature works by obtaining a mAP score of 0.561 and an IoU score of 0.682. The inference time of 80.4ms was recorded, which stands out best in the literature

Multi-Scale Structural-aware Exposure Correction for Endoscopic Imaging

Endoscopy is the most widely used imaging technique for the diagnosis of cancerous lesions in hollow organs. However, endoscopic images are often affected by illumination artefacts: image parts may be over- or underexposed according to the light source pose and the tissue orientation. These artifacts have a strong negative impact on the performance of computer vision or AI-based diagnosis tools. Although endoscopic image enhancement methods are greatly required, little effort has been devoted to over- and under-exposition enhancement in real-time. This contribution presents an extension to the objective function of LMSPEC, a method originally introduced to enhance images from natural scenes. It is used here for the exposure correction in endoscopic imaging and the preservation of structural information. To the best of our knowledge, this contribution is the first one that addresses the enhancement of endoscopic images using deep learning (DL) methods. Tested on the Endo4IE dataset, the proposed implementation has yielded a significant improvement over LMSPEC reaching a SSIM increase of 4.40% and 4.21% for over- and underexposed images, respectively.Comment: This work has been submitted to the IEEE for possible publication. Copyright may be transferred without notice, after which this version may no longer be accessibl

Experimental Evaluation and Analysis of LED Illumination Source for Endoscopy Imaging

The minimally invasive surgery uses a small instrument with camera and light to fit the tiny cut in the skin. The selection of the light depends on the power and driving current of the circuit. It can also help in the standardization of the camera and capture the tissues' true-colour image. This paper presents the LED source analysis used in the clinical endoscopes for surgery and the human body's medical examination. Initially, a LED source selection mechanism generating intense illuminance in a visible band is proposed. A low-cost prototype model is developed to analyze the wavelength and illuminance of three different LEDs types. An effect on variation in LED illumination is investigated by changing the distance between the Borescope and LED source. True-colour image generation and tissue contrast are more important in medical diagnostics. Therefore, a sigmoid function improving the whole contrast ratio of the captured image in real-time is presented. The results of spectrum and wavelength for a current variation are presented. Type 3 LED produces higher illumination (i.e., 395 Klux) and peak wavelength (i.e., 622.05 nm) than other LEDs, while type-2 LED has better FWHM for the blue colour spectrum. The modification in the sigmoid function enhances the image with 34.25 peak PSNR producing a true-colour image