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Clinical gait analysis (CGA) using computer vision is an emerging field in artificial intelligence that faces barriers of accessible, real-world data, and clear task objectives. This paper lays the foundation for current developments in CGA as well as vision-based methods and datasets suitable for gait analysis. We introduce The Gait Abnormality in Video Dataset (GAVD) in response to our review of over 150 current gait-related computer vision datasets, which highlighted the need for a large and accessible gait dataset clinically annotated for CGA. GAVD stands out as the largest video gait dataset, comprising 1874 sequences of normal, abnormal and pathological gaits. Additionally, GAVD includes clinically annotated RGB data sourced from publicly available content on online platforms. It also encompasses over 400 subjects who have undergone clinical grade visual screening to represent a diverse range of abnormal gait patterns, captured in various settings, including hospital clinics and urban uncontrolled outdoor environments. We demonstrate the validity of the dataset and utility of action recognition models for CGA using pretrained models Temporal Segment Networks(TSN) and SlowFast network to achieve video abnormality detection of 94% and 92% respectively when tested on GAVD dataset. A GitHub repository https://github.com/Rahmyyy/GAVD consisting of convenient URL links, and clinically relevant annotation for CGA is provided for over 450 online videos, featuring diverse subjects performing a range of normal, pathological, and abnormal gait patterns.

Camera-based remote photoplethysmography (rPPG) enables contactless measurement of important physiological signals such as pulse rate (PR). However, dynamic and unconstrained subject motion introduces significant variability into the facial appearance in video, confounding the ability of video-based methods to accurately extract the rPPG signal. In this study, we leverage the 3D facial surface to construct a novel orientation-conditioned facial texture video representation which improves the motion robustness of existing video-based facial rPPG estimation methods. Our proposed method achieves a significant 18.2% performance improvement in cross-dataset testing on MMPD over our baseline using the PhysNet model trained on PURE, highlighting the efficacy and generalization benefits of our designed video representation. We demonstrate significant performance improvements of up to 29.6% in all tested motion scenarios in cross-dataset testing on MMPD, even in the presence of dynamic and unconstrained subject motion, emphasizing the benefits of disentangling motion through modeling the 3D facial surface for motion robust facial rPPG estimation. We validate the efficacy of our design decisions and the impact of different video processing steps through an ablation study. Our findings illustrate the potential strengths of exploiting the 3D facial surface as a general strategy for addressing dynamic and unconstrained subject motion in videos. The code is available at https://samcantrill.github.io/orientation-uv-rppg/., Comment: 12 pages, 8 figures, 6 tables; minor corrections

Seizure events can manifest as transient disruptions in the control of movements which may be organized in distinct behavioral sequences, accompanied or not by other observable features such as altered facial expressions. The analysis of these clinical signs, referred to as semiology, is subject to observer variations when specialists evaluate video-recorded events in the clinical setting. To enhance the accuracy and consistency of evaluations, computer-aided video analysis of seizures has emerged as a natural avenue. In the field of medical applications, deep learning and computer vision approaches have driven substantial advancements. Historically, these approaches have been used for disease detection, classification, and prediction using diagnostic data; however, there has been limited exploration of their application in evaluating video-based motion detection in the clinical epileptology setting. While vision-based technologies do not aim to replace clinical expertise, they can significantly contribute to medical decision-making and patient care by providing quantitative evidence and decision support. Behavior monitoring tools offer several advantages such as providing objective information, detecting challenging-to-observe events, reducing documentation efforts, and extending assessment capabilities to areas with limited expertise. The main applications of these could be (1) improved seizure detection methods; (2) refined semiology analysis for predicting seizure type and cerebral localization. In this paper, we detail the foundation technologies used in vision-based systems in the analysis of seizure videos, highlighting their success in semiology detection and analysis, focusing on work published in the last 7 years. Additionally, we illustrate how existing technologies can be interconnected through an integrated system for video-based semiology analysis., Comment: Accepted in Epilepsy & Behavior

Wound management poses a significant challenge, particularly for bedridden patients and the elderly. Accurate diagnostic and healing monitoring can significantly benefit from modern image analysis, providing accurate and precise measurements of wounds. Despite several existing techniques, the shortage of expansive and diverse training datasets remains a significant obstacle to constructing machine learning-based frameworks. This paper introduces Syn3DWound, an open-source dataset of high-fidelity simulated wounds with 2D and 3D annotations. We propose baseline methods and a benchmarking framework for automated 3D morphometry analysis and 2D/3D wound segmentation., Comment: In the IEEE International Symposium on Biomedical Imaging (ISBI) 2024

Hyperspectral Imaging (HSI) provides detailed spectral information and has been utilised in many real-world applications. This work introduces an HSI dataset of building facades in a light industry environment with the aim of classifying different building materials in a scene. The dataset is called the Light Industrial Building HSI (LIB-HSI) dataset. This dataset consists of nine categories and 44 classes. In this study, we investigated deep learning based semantic segmentation algorithms on RGB and hyperspectral images to classify various building materials, such as timber, brick and concrete.

Automatic labelling of anatomical structures, such as coronary arteries, is critical for diagnosis, yet existing (non-deep learning) methods are limited by a reliance on prior topological knowledge of the expected tree-like structures. As the structure such vascular systems is often difficult to conceptualize, graph-based representations have become popular due to their ability to capture the geometric and topological properties of the morphology in an orientation-independent and abstract manner. However, graph-based learning for automated labeling of tree-like anatomical structures has received limited attention in the literature. The majority of prior studies have limitations in the entity graph construction, are dependent on topological structures, and have limited accuracy due to the anatomical variability between subjects. In this paper, we propose an intuitive graph representation method, well suited to use with 3D coordinate data obtained from angiography scans. We subsequently seek to analyze subject-specific graphs using geometric deep learning. The proposed models leverage expert annotated labels from 141 patients to learn representations of each coronary segment, while capturing the effects of anatomical variability within the training data. We investigate different variants of so-called message passing neural networks. Through extensive evaluations, our pipeline achieves a promising weighted F1-score of 0.805 for labeling coronary artery (13 classes) for a five-fold cross-validation. Considering the ability of graph models in dealing with irregular data, and their scalability for data segmentation, this work highlights the potential of such methods to provide quantitative evidence to support the decisions of medical experts.

Advances in machine learning and contactless sensors have enabled the understanding complex human behaviors in a healthcare setting. In particular, several deep learning systems have been introduced to enable comprehensive analysis of neuro-developmental conditions such as Autism Spectrum Disorder (ASD). This condition affects children from their early developmental stages onwards, and diagnosis relies entirely on observing the child's behavior and detecting behavioral cues. However, the diagnosis process is time-consuming as it requires long-term behavior observation, and the scarce availability of specialists. We demonstrate the effect of a region-based computer vision system to help clinicians and parents analyze a child's behavior. For this purpose, we adopt and enhance a dataset for analyzing autism-related actions using videos of children captured in uncontrolled environments (e.g. videos collected with consumer-grade cameras, in varied environments). The data is pre-processed by detecting the target child in the video to reduce the impact of background noise. Motivated by the effectiveness of temporal convolutional models, we propose both light-weight and conventional models capable of extracting action features from video frames and classifying autism-related behaviors by analyzing the relationships between frames in a video. Through extensive evaluations on the feature extraction and learning strategies, we demonstrate that the best performance is achieved with an Inflated 3D Convnet and Multi-Stage Temporal Convolutional Networks, achieving a 0.83 Weighted F1-score for classification of the three autism-related actions, outperforming existing methods. We also propose a light-weight solution by employing the ESNet backbone within the same system, achieving competitive results of 0.71 Weighted F1-score, and enabling potential deployment on embedded systems.

We present You Only Cut Once (YOCO) for performing data augmentations. YOCO cuts one image into two pieces and performs data augmentations individually within each piece. Applying YOCO improves the diversity of the augmentation per sample and encourages neural networks to recognize objects from partial information. YOCO enjoys the properties of parameter-free, easy usage, and boosting almost all augmentations for free. Thorough experiments are conducted to evaluate its effectiveness. We first demonstrate that YOCO can be seamlessly applied to varying data augmentations, neural network architectures, and brings performance gains on CIFAR and ImageNet classification tasks, sometimes surpassing conventional image-level augmentation by large margins. Moreover, we show YOCO benefits contrastive pre-training toward a more powerful representation that can be better transferred to multiple downstream tasks. Finally, we study a number of variants of YOCO and empirically analyze the performance for respective settings. Code is available at GitHub., Comment: ICML 2022, Code: https://github.com/JunlinHan/YOCO

Medical applications have benefited greatly from the rapid advancement in computer vision. Considering patient monitoring in particular, in-bed human posture estimation offers important health-related metrics with potential value in medical condition assessments. Despite great progress in this domain, it remains challenging due to substantial ambiguity during occlusions, and the lack of large corpora of manually labeled data for model training, particularly with domains such as thermal infrared imaging which are privacy-preserving, and thus of great interest. Motivated by the effectiveness of self-supervised methods in learning features directly from data, we propose a multi-modal conditional variational autoencoder (MC-VAE) capable of reconstructing features from missing modalities seen during training. This approach is used with HRNet to enable single modality inference for in-bed pose estimation. Through extensive evaluations, we demonstrate that body positions can be effectively recognized from the available modality, achieving on par results with baseline models that are highly dependent on having access to multiple modes at inference time. The proposed framework supports future research towards self-supervised learning that generates a robust model from a single source, and expects it to generalize over many unknown distributions in clinical environments., Comment: In the IEEE International Symposium on Biomedical Imaging (ISBI)

Crown-of-Thorn Starfish (COTS) outbreaks are a major cause of coral loss on the Great Barrier Reef (GBR) and substantial surveillance and control programs are underway in an attempt to manage COTS populations to ecologically sustainable levels. We release a large-scale, annotated underwater image dataset from a COTS outbreak area on the GBR, to encourage research on Machine Learning and AI-driven technologies to improve the detection, monitoring, and management of COTS populations at reef scale. The dataset is released and hosted in a Kaggle competition that challenges the international Machine Learning community with the task of COTS detection from these underwater images.

Existing deep learning based unsupervised video object segmentation methods still rely on ground-truth segmentation masks to train. Unsupervised in this context only means that no annotated frames are used during inference. As obtaining ground-truth segmentation masks for real image scenes is a laborious task, we envision a simple framework for dominant moving object segmentation that neither requires annotated data to train nor relies on saliency priors or pre-trained optical flow maps. Inspired by a layered image representation, we introduce a technique to group pixel regions according to their affine parametric motion. This enables our network to learn segmentation of the dominant foreground object using only RGB image pairs as input for both training and inference. We establish a baseline for this novel task using a new MovingCars dataset and show competitive performance against recent methods that require annotated masks to train., Comment: DICTA 2021

We propose and study a novel task named Blind Image Decomposition (BID), which requires separating a superimposed image into constituent underlying images in a blind setting, that is, both the source components involved in mixing as well as the mixing mechanism are unknown. For example, rain may consist of multiple components, such as rain streaks, raindrops, snow, and haze. Rainy images can be treated as an arbitrary combination of these components, some of them or all of them. How to decompose superimposed images, like rainy images, into distinct source components is a crucial step toward real-world vision systems. To facilitate research on this new task, we construct multiple benchmark datasets, including mixed image decomposition across multiple domains, real-scenario deraining, and joint shadow/reflection/watermark removal. Moreover, we propose a simple yet general Blind Image Decomposition Network (BIDeN) to serve as a strong baseline for future work. Experimental results demonstrate the tenability of our benchmarks and the effectiveness of BIDeN., Comment: ECCV 2022. Project page: https://junlinhan.github.io/projects/BID.html. Code: https://github.com/JunlinHan/BID

With the remarkable success of representation learning for prediction problems, we have witnessed a rapid expansion of the use of machine learning and deep learning for the analysis of digital pathology and biopsy image patches. However, learning over patch-wise features using convolutional neural networks limits the ability of the model to capture global contextual information and comprehensively model tissue composition. The phenotypical and topological distribution of constituent histological entities play a critical role in tissue diagnosis. As such, graph data representations and deep learning have attracted significant attention for encoding tissue representations, and capturing intra- and inter- entity level interactions. In this review, we provide a conceptual grounding for graph analytics in digital pathology, including entity-graph construction and graph architectures, and present their current success for tumor localization and classification, tumor invasion and staging, image retrieval, and survival prediction. We provide an overview of these methods in a systematic manner organized by the graph representation of the input image, scale, and organ on which they operate. We also outline the limitations of existing techniques, and suggest potential future research directions in this domain., Comment: Preprint submitted to Computerized Medical Imaging and Graphics

Underwater image restoration is of significant importance in unveiling the underwater world. Numerous techniques and algorithms have been developed in the past decades. However, due to fundamental difficulties associated with imaging/sensing, lighting, and refractive geometric distortions, in capturing clear underwater images, no comprehensive evaluations have been conducted of underwater image restoration. To address this gap, we have constructed a large-scale real underwater image dataset, dubbed `HICRD' (Heron Island Coral Reef Dataset), for the purpose of benchmarking existing methods and supporting the development of new deep-learning based methods. We employ accurate water parameter (diffuse attenuation coefficient) in generating reference images. There are 2000 reference restored images and 6003 original underwater images in the unpaired training set. Further, we present a novel method for underwater image restoration based on unsupervised image-to-image translation framework. Our proposed method leveraged contrastive learning and generative adversarial networks to maximize the mutual information between raw and restored images. Extensive experiments with comparisons to recent approaches further demonstrate the superiority of our proposed method. Our code and dataset are publicly available at GitHub., Comment: In submission, code/dataset are at https://github.com/JunlinHan/CWR. arXiv admin note: text overlap with arXiv:2103.09697

Inpatient falls are a serious safety issue in hospitals and healthcare facilities. Recent advances in video analytics for patient monitoring provide a non-intrusive avenue to reduce this risk through continuous activity monitoring. However, in-bed fall risk assessment systems have received less attention in the literature. The majority of prior studies have focused on fall event detection, and do not consider the circumstances that may indicate an imminent inpatient fall. Here, we propose a video-based system that can monitor the risk of a patient falling, and alert staff of unsafe behaviour to help prevent falls before they occur. We propose an approach that leverages recent advances in human localisation and skeleton pose estimation to extract spatial features from video frames recorded in a simulated environment. We demonstrate that body positions can be effectively recognised and provide useful evidence for fall risk assessment. This work highlights the benefits of video-based models for analysing behaviours of interest, and demonstrates how such a system could enable sufficient lead time for healthcare professionals to respond and address patient needs, which is necessary for the development of fall intervention programs.

With the advances of data-driven machine learning research, a wide variety of prediction problems have been tackled. It has become critical to explore how machine learning and specifically deep learning methods can be exploited to analyse healthcare data. A major limitation of existing methods has been the focus on grid-like data; however, the structure of physiological recordings are often irregular and unordered which makes it difficult to conceptualise them as a matrix. As such, graph neural networks have attracted significant attention by exploiting implicit information that resides in a biological system, with interactive nodes connected by edges whose weights can be either temporal associations or anatomical junctions. In this survey, we thoroughly review the different types of graph architectures and their applications in healthcare. We provide an overview of these methods in a systematic manner, organized by their domain of application including functional connectivity, anatomical structure and electrical-based analysis. We also outline the limitations of existing techniques and discuss potential directions for future research.

Recent advances in deep learning have enabled the development of automated frameworks for analysing medical images and signals, including analysis of cervical cancer. Many previous works focus on the analysis of isolated cervical cells, or do not offer sufficient methods to explain and understand how the proposed models reach their classification decisions on multi-cell images. Here, we evaluate various state-of-the-art deep learning models and attention-based frameworks for the classification of images of multiple cervical cells. As we aim to provide interpretable deep learning models to address this task, we also compare their explainability through the visualization of their gradients. We demonstrate the importance of using images that contain multiple cells over using isolated single-cell images. We show the effectiveness of the residual channel attention model for extracting important features from a group of cells, and demonstrate this model's efficiency for this classification task. This work highlights the benefits of channel attention mechanisms in analyzing multiple-cell images for potential relations and distributions within a group of cells. It also provides interpretable models to address the classification of cervical cells.

Unsupervised image-to-image translation tasks aim to find a mapping between a source domain X and a target domain Y from unpaired training data. Contrastive learning for Unpaired image-to-image Translation (CUT) yields state-of-the-art results in modeling unsupervised image-to-image translation by maximizing mutual information between input and output patches using only one encoder for both domains. In this paper, we propose a novel method based on contrastive learning and a dual learning setting (exploiting two encoders) to infer an efficient mapping between unpaired data. Additionally, while CUT suffers from mode collapse, a variant of our method efficiently addresses this issue. We further demonstrate the advantage of our approach through extensive ablation studies demonstrating superior performance comparing to recent approaches in multiple challenging image translation tasks. Lastly, we demonstrate that the gap between unsupervised methods and supervised methods can be efficiently closed., Comment: Accepted to NTIRE, CVPRW 2021. Code is available at https://github.com/JunlinHan/DCLGAN

Underwater image restoration attracts significant attention due to its importance in unveiling the underwater world. This paper elaborates on a novel method that achieves state-of-the-art results for underwater image restoration based on the unsupervised image-to-image translation framework. We design our method by leveraging from contrastive learning and generative adversarial networks to maximize mutual information between raw and restored images. Additionally, we release a large-scale real underwater image dataset to support both paired and unpaired training modules. Extensive experiments with comparisons to recent approaches further demonstrate the superiority of our proposed method., Comment: Accepted to IGARSS 2021 as oral presentation. Code is available at https://github.com/JunlinHan/CWR

Advances in the design of multi-spectral cameras have led to great interests in a wide range of applications, from astronomy to autonomous driving. However, such cameras inherently suffer from a trade-off between the spatial and spectral resolution. In this paper, we propose to address this limitation by introducing a novel method to carry out super-resolution on raw mosaic images, multi-spectral or RGB Bayer, captured by modern real-time single-shot mosaic sensors. To this end, we design a deep super-resolution architecture that benefits from a sequential feature pyramid along the depth of the network. This, in fact, is achieved by utilizing a convolutional LSTM (ConvLSTM) to learn the inter-dependencies between features at different receptive fields. Additionally, by investigating the effect of different attention mechanisms in our framework, we show that a ConvLSTM inspired module is able to provide superior attention in our context. Our extensive experiments and analyses evidence that our approach yields significant super-resolution quality, outperforming current state-of-the-art mosaic super-resolution methods on both Bayer and multi-spectral images. Additionally, to the best of our knowledge, our method is the first specialized method to super-resolve mosaic images, whether it be multi-spectral or Bayer., Comment: Accepted by IEEE CVPR Workshop

This paper introduces a novel method to simultaneously super-resolve and colour-predict images acquired by snapshot mosaic sensors. These sensors allow for spectral images to be acquired using low-power, small form factor, solid-state CMOS sensors that can operate at video frame rates without the need for complex optical setups. Despite their desirable traits, their main drawback stems from the fact that the spatial resolution of the imagery acquired by these sensors is low. Moreover, chromatic mapping in snapshot mosaic sensors is not straightforward since the bands delivered by the sensor tend to be narrow and unevenly distributed across the range in which they operate. We tackle this drawback as applied to chromatic mapping by using a residual channel attention network equipped with a texture sensitive block. Our method significantly outperforms the traditional approach of interpolating the image and, afterwards, applying a colour matching function. This work establishes state-of-the-art in this domain while also making available to the research community a dataset containing 296 registered stereo multi-spectral/RGB images pairs.