On the Effect of Inter-observer Variability for a Reliable Estimation of Uncertainty of Medical Image Segmentation

Uncertainty estimation methods are expected to improve the understanding and quality of computer-assisted methods used in medical applications (e.g., neurosurgical interventions, radiotherapy planning), where automated medical image segmentation is crucial. In supervised machine learning, a common practice to generate ground truth label data is to merge observer annotations. However, as many medical image tasks show a high inter-observer variability resulting from factors such as image quality, different levels of user expertise and domain knowledge, little is known as to how inter-observer variability and commonly used fusion methods affect the estimation of uncertainty of automated image segmentation. In this paper we analyze the effect of common image label fusion techniques on uncertainty estimation, and propose to learn the uncertainty among observers. The results highlight the negative effect of fusion methods applied in deep learning, to obtain reliable estimates of segmentation uncertainty. Additionally, we show that the learned observers' uncertainty can be combined with current standard Monte Carlo dropout Bayesian neural networks to characterize uncertainty of model's parameters.Comment: Appears in Medical Image Computing and Computer Assisted Interventions (MICCAI), 201

CardiacNET: Segmentation of Left Atrium and Proximal Pulmonary Veins from MRI Using Multi-View CNN

Anatomical and biophysical modeling of left atrium (LA) and proximal pulmonary veins (PPVs) is important for clinical management of several cardiac diseases. Magnetic resonance imaging (MRI) allows qualitative assessment of LA and PPVs through visualization. However, there is a strong need for an advanced image segmentation method to be applied to cardiac MRI for quantitative analysis of LA and PPVs. In this study, we address this unmet clinical need by exploring a new deep learning-based segmentation strategy for quantification of LA and PPVs with high accuracy and heightened efficiency. Our approach is based on a multi-view convolutional neural network (CNN) with an adaptive fusion strategy and a new loss function that allows fast and more accurate convergence of the backpropagation based optimization. After training our network from scratch by using more than 60K 2D MRI images (slices), we have evaluated our segmentation strategy to the STACOM 2013 cardiac segmentation challenge benchmark. Qualitative and quantitative evaluations, obtained from the segmentation challenge, indicate that the proposed method achieved the state-of-the-art sensitivity (90%), specificity (99%), precision (94%), and efficiency levels (10 seconds in GPU, and 7.5 minutes in CPU).Comment: The paper is accepted by MICCAI 2017 for publicatio

Box-level Segmentation Supervised Deep Neural Networks for Accurate and Real-time Multispectral Pedestrian Detection

Effective fusion of complementary information captured by multi-modal sensors (visible and infrared cameras) enables robust pedestrian detection under various surveillance situations (e.g. daytime and nighttime). In this paper, we present a novel box-level segmentation supervised learning framework for accurate and real-time multispectral pedestrian detection by incorporating features extracted in visible and infrared channels. Specifically, our method takes pairs of aligned visible and infrared images with easily obtained bounding box annotations as input and estimates accurate prediction maps to highlight the existence of pedestrians. It offers two major advantages over the existing anchor box based multispectral detection methods. Firstly, it overcomes the hyperparameter setting problem occurred during the training phase of anchor box based detectors and can obtain more accurate detection results, especially for small and occluded pedestrian instances. Secondly, it is capable of generating accurate detection results using small-size input images, leading to improvement of computational efficiency for real-time autonomous driving applications. Experimental results on KAIST multispectral dataset show that our proposed method outperforms state-of-the-art approaches in terms of both accuracy and speed

Multi-View Deep Learning for Consistent Semantic Mapping with RGB-D Cameras

Visual scene understanding is an important capability that enables robots to purposefully act in their environment. In this paper, we propose a novel approach to object-class segmentation from multiple RGB-D views using deep learning. We train a deep neural network to predict object-class semantics that is consistent from several view points in a semi-supervised way. At test time, the semantics predictions of our network can be fused more consistently in semantic keyframe maps than predictions of a network trained on individual views. We base our network architecture on a recent single-view deep learning approach to RGB and depth fusion for semantic object-class segmentation and enhance it with multi-scale loss minimization. We obtain the camera trajectory using RGB-D SLAM and warp the predictions of RGB-D images into ground-truth annotated frames in order to enforce multi-view consistency during training. At test time, predictions from multiple views are fused into keyframes. We propose and analyze several methods for enforcing multi-view consistency during training and testing. We evaluate the benefit of multi-view consistency training and demonstrate that pooling of deep features and fusion over multiple views outperforms single-view baselines on the NYUDv2 benchmark for semantic segmentation. Our end-to-end trained network achieves state-of-the-art performance on the NYUDv2 dataset in single-view segmentation as well as multi-view semantic fusion.Comment: the 2017 IEEE/RSJ International Conference on Intelligent Robots and Systems (IROS 2017

Co-Fusion: Real-time Segmentation, Tracking and Fusion of Multiple Objects

In this paper we introduce Co-Fusion, a dense SLAM system that takes a live stream of RGB-D images as input and segments the scene into different objects (using either motion or semantic cues) while simultaneously tracking and reconstructing their 3D shape in real time. We use a multiple model fitting approach where each object can move independently from the background and still be effectively tracked and its shape fused over time using only the information from pixels associated with that object label. Previous attempts to deal with dynamic scenes have typically considered moving regions as outliers, and consequently do not model their shape or track their motion over time. In contrast, we enable the robot to maintain 3D models for each of the segmented objects and to improve them over time through fusion. As a result, our system can enable a robot to maintain a scene description at the object level which has the potential to allow interactions with its working environment; even in the case of dynamic scenes.Comment: International Conference on Robotics and Automation (ICRA) 2017, http://visual.cs.ucl.ac.uk/pubs/cofusion, https://github.com/martinruenz/co-fusio

Fusion of Multispectral Data Through Illumination-aware Deep Neural Networks for Pedestrian Detection

Multispectral pedestrian detection has received extensive attention in recent years as a promising solution to facilitate robust human target detection for around-the-clock applications (e.g. security surveillance and autonomous driving). In this paper, we demonstrate illumination information encoded in multispectral images can be utilized to significantly boost performance of pedestrian detection. A novel illumination-aware weighting mechanism is present to accurately depict illumination condition of a scene. Such illumination information is incorporated into two-stream deep convolutional neural networks to learn multispectral human-related features under different illumination conditions (daytime and nighttime). Moreover, we utilized illumination information together with multispectral data to generate more accurate semantic segmentation which are used to boost pedestrian detection accuracy. Putting all of the pieces together, we present a powerful framework for multispectral pedestrian detection based on multi-task learning of illumination-aware pedestrian detection and semantic segmentation. Our proposed method is trained end-to-end using a well-designed multi-task loss function and outperforms state-of-the-art approaches on KAIST multispectral pedestrian dataset

Guided Curriculum Model Adaptation and Uncertainty-Aware Evaluation for Semantic Nighttime Image Segmentation

Most progress in semantic segmentation reports on daytime images taken under favorable illumination conditions. We instead address the problem of semantic segmentation of nighttime images and improve the state-of-the-art, by adapting daytime models to nighttime without using nighttime annotations. Moreover, we design a new evaluation framework to address the substantial uncertainty of semantics in nighttime images. Our central contributions are: 1) a curriculum framework to gradually adapt semantic segmentation models from day to night via labeled synthetic images and unlabeled real images, both for progressively darker times of day, which exploits cross-time-of-day correspondences for the real images to guide the inference of their labels; 2) a novel uncertainty-aware annotation and evaluation framework and metric for semantic segmentation, designed for adverse conditions and including image regions beyond human recognition capability in the evaluation in a principled fashion; 3) the Dark Zurich dataset, which comprises 2416 unlabeled nighttime and 2920 unlabeled twilight images with correspondences to their daytime counterparts plus a set of 151 nighttime images with fine pixel-level annotations created with our protocol, which serves as a first benchmark to perform our novel evaluation. Experiments show that our guided curriculum adaptation significantly outperforms state-of-the-art methods on real nighttime sets both for standard metrics and our uncertainty-aware metric. Furthermore, our uncertainty-aware evaluation reveals that selective invalidation of predictions can lead to better results on data with ambiguous content such as our nighttime benchmark and profit safety-oriented applications which involve invalid inputs.Comment: ICCV 2019 camera-read