Medical imaging analysis with artificial neural networks

Given that neural networks have been widely reported in the research community of medical imaging, we provide a focused literature survey on recent neural network developments in computer-aided diagnosis, medical image segmentation and edge detection towards visual content analysis, and medical image registration for its pre-processing and post-processing, with the aims of increasing awareness of how neural networks can be applied to these areas and to provide a foundation for further research and practical development. Representative techniques and algorithms are explained in detail to provide inspiring examples illustrating: (i) how a known neural network with fixed structure and training procedure could be applied to resolve a medical imaging problem; (ii) how medical images could be analysed, processed, and characterised by neural networks; and (iii) how neural networks could be expanded further to resolve problems relevant to medical imaging. In the concluding section, a highlight of comparisons among many neural network applications is included to provide a global view on computational intelligence with neural networks in medical imaging

Challenges and prospects of spatial machine learning

The main objective of this thesis is to improve the usefulness of spatial machine learning for the spatial sciences and to allow its unused potential to be exploited. To achieve this objective, this thesis addresses several important but distinct challenges which spatial machine learning is facing. These are the modeling of spatial autocorrelation and spatial heterogeneity, the selection of an appropriate model for a given spatial problem, and the understanding of complex spatial machine learning models.Das wesentliche Ziel dieser Arbeit ist es, die Nützlichkeit des räumlichen maschinellen Lernens für die Raumwissenschaften zu verbessern und es zu ermöglichen, ungenutztes Potenzial auszuschöpfen. Um dieses Ziel zu erreichen, befasst sich diese Arbeit mit mehreren wichtigen Herausforderungen, denen das räumliche maschinelle Lernen gegenübersteht. Diese sind die Modellierung von räumlicher Autokorrelation und räumlicher Heterogenität, die Auswahl eines geeigneten Modells für ein gegebenes räumliches Problem und das Verständnis komplexer räumlicher maschineller Lernmodelle

On Interpretability of Deep Learning based Skin Lesion Classifiers using Concept Activation Vectors

Deep learning based medical image classifiers have shown remarkable prowess in various application areas like ophthalmology, dermatology, pathology, and radiology. However, the acceptance of these Computer-Aided Diagnosis (CAD) systems in real clinical setups is severely limited primarily because their decision-making process remains largely obscure. This work aims at elucidating a deep learning based medical image classifier by verifying that the model learns and utilizes similar disease-related concepts as described and employed by dermatologists. We used a well-trained and high performing neural network developed by REasoning for COmplex Data (RECOD) Lab for classification of three skin tumours, i.e. Melanocytic Naevi, Melanoma and Seborrheic Keratosis and performed a detailed analysis on its latent space. Two well established and publicly available skin disease datasets, PH2 and derm7pt, are used for experimentation. Human understandable concepts are mapped to RECOD image classification model with the help of Concept Activation Vectors (CAVs), introducing a novel training and significance testing paradigm for CAVs. Our results on an independent evaluation set clearly shows that the classifier learns and encodes human understandable concepts in its latent representation. Additionally, TCAV scores (Testing with CAVs) suggest that the neural network indeed makes use of disease-related concepts in the correct way when making predictions. We anticipate that this work can not only increase confidence of medical practitioners on CAD but also serve as a stepping stone for further development of CAV-based neural network interpretation methods.Comment: Accepted for the IEEE International Joint Conference on Neural Networks (IJCNN) 202

DeepVoting: A Robust and Explainable Deep Network for Semantic Part Detection under Partial Occlusion

In this paper, we study the task of detecting semantic parts of an object, e.g., a wheel of a car, under partial occlusion. We propose that all models should be trained without seeing occlusions while being able to transfer the learned knowledge to deal with occlusions. This setting alleviates the difficulty in collecting an exponentially large dataset to cover occlusion patterns and is more essential. In this scenario, the proposal-based deep networks, like RCNN-series, often produce unsatisfactory results, because both the proposal extraction and classification stages may be confused by the irrelevant occluders. To address this, [25] proposed a voting mechanism that combines multiple local visual cues to detect semantic parts. The semantic parts can still be detected even though some visual cues are missing due to occlusions. However, this method is manually-designed, thus is hard to be optimized in an end-to-end manner. In this paper, we present DeepVoting, which incorporates the robustness shown by [25] into a deep network, so that the whole pipeline can be jointly optimized. Specifically, it adds two layers after the intermediate features of a deep network, e.g., the pool-4 layer of VGGNet. The first layer extracts the evidence of local visual cues, and the second layer performs a voting mechanism by utilizing the spatial relationship between visual cues and semantic parts. We also propose an improved version DeepVoting+ by learning visual cues from context outside objects. In experiments, DeepVoting achieves significantly better performance than several baseline methods, including Faster-RCNN, for semantic part detection under occlusion. In addition, DeepVoting enjoys explainability as the detection results can be diagnosed via looking up the voting cues

SoccerNet: A Scalable Dataset for Action Spotting in Soccer Videos

In this paper, we introduce SoccerNet, a benchmark for action spotting in soccer videos. The dataset is composed of 500 complete soccer games from six main European leagues, covering three seasons from 2014 to 2017 and a total duration of 764 hours. A total of 6,637 temporal annotations are automatically parsed from online match reports at a one minute resolution for three main classes of events (Goal, Yellow/Red Card, and Substitution). As such, the dataset is easily scalable. These annotations are manually refined to a one second resolution by anchoring them at a single timestamp following well-defined soccer rules. With an average of one event every 6.9 minutes, this dataset focuses on the problem of localizing very sparse events within long videos. We define the task of spotting as finding the anchors of soccer events in a video. Making use of recent developments in the realm of generic action recognition and detection in video, we provide strong baselines for detecting soccer events. We show that our best model for classifying temporal segments of length one minute reaches a mean Average Precision (mAP) of 67.8%. For the spotting task, our baseline reaches an Average-mAP of 49.7% for tolerances $\delta$ ranging from 5 to 60 seconds. Our dataset and models are available at https://silviogiancola.github.io/SoccerNet.Comment: CVPR Workshop on Computer Vision in Sports 201

Using accelerometer, high sample rate GPS and magnetometer data to develop a cattle movement and behaviour model

The study described in this paper developed a model of animal movement, which explicitly recognised each individual as the central unit of measure. The model was developed by learning from a real dataset that measured and calculated, for individual cows in a herd, their linear and angular positions and directional and angular speeds. Two learning algorithms were implemented: a Hidden Markov model (HMM) and a long-term prediction algorithm. It is shown that a HMM can be used to describe the animal's movement and state transition behaviour within several “stay” areas where cows remained for long periods. Model parameters were estimated for hidden behaviour states such as relocating, foraging and bedding. For cows’ movement between the “stay” areas a long-term prediction algorithm was implemented. By combining these two algorithms it was possible to develop a successful model, which achieved similar results to the animal behaviour data collected. This modelling methodology could easily be applied to interactions of other animal specie