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Semi-supervised video object segmentation is a task of segmenting the target object in a video sequence given only a mask annotation in the first frame. The limited information available makes it an extremely challenging task. Most previous best-performing methods adopt matching-based transductive reasoning or online inductive learning. Nevertheless, they are either less discriminative for similar instances or insufficient in the utilization of spatio-temporal information. In this work, we propose to integrate transductive and inductive learning into a unified framework to exploit the complementarity between them for accurate and robust video object segmentation. The proposed approach consists of two functional branches. The transduction branch adopts a lightweight transformer architecture to aggregate rich spatio-temporal cues while the induction branch performs online inductive learning to obtain discriminative target information. To bridge these two diverse branches, a two-head label encoder is introduced to learn the suitable target prior for each of them. The generated mask encodings are further forced to be disentangled to better retain their complementarity. Extensive experiments on several prevalent benchmarks show that, without the need of synthetic training data, the proposed approach sets a series of new state-of-the-art records. Code is available at //github.com/maoyunyao/JOINT.

Deep learning has become the most widely used approach for cardiac image segmentation in recent years. In this paper, we provide a review of over 100 cardiac image segmentation papers using deep learning, which covers common imaging modalities including magnetic resonance imaging (MRI), computed tomography (CT), and ultrasound (US) and major anatomical structures of interest (ventricles, atria and vessels). In addition, a summary of publicly available cardiac image datasets and code repositories are included to provide a base for encouraging reproducible research. Finally, we discuss the challenges and limitations with current deep learning-based approaches (scarcity of labels, model generalizability across different domains, interpretability) and suggest potential directions for future research.

Graph neural networks (GNNs) are a popular class of machine learning models whose major advantage is their ability to incorporate a sparse and discrete dependency structure between data points. Unfortunately, GNNs can only be used when such a graph-structure is available. In practice, however, real-world graphs are often noisy and incomplete or might not be available at all. With this work, we propose to jointly learn the graph structure and the parameters of graph convolutional networks (GCNs) by approximately solving a bilevel program that learns a discrete probability distribution on the edges of the graph. This allows one to apply GCNs not only in scenarios where the given graph is incomplete or corrupted but also in those where a graph is not available. We conduct a series of experiments that analyze the behavior of the proposed method and demonstrate that it outperforms related methods by a significant margin.

3D image segmentation plays an important role in biomedical image analysis. Many 2D and 3D deep learning models have achieved state-of-the-art segmentation performance on 3D biomedical image datasets. Yet, 2D and 3D models have their own strengths and weaknesses, and by unifying them together, one may be able to achieve more accurate results. In this paper, we propose a new ensemble learning framework for 3D biomedical image segmentation that combines the merits of 2D and 3D models. First, we develop a fully convolutional network based meta-learner to learn how to improve the results from 2D and 3D models (base-learners). Then, to minimize over-fitting for our sophisticated meta-learner, we devise a new training method that uses the results of the base-learners as multiple versions of "ground truths". Furthermore, since our new meta-learner training scheme does not depend on manual annotation, it can utilize abundant unlabeled 3D image data to further improve the model. Extensive experiments on two public datasets (the HVSMR 2016 Challenge dataset and the mouse piriform cortex dataset) show that our approach is effective under fully-supervised, semi-supervised, and transductive settings, and attains superior performance over state-of-the-art image segmentation methods.

Data augmentation has been widely used for training deep learning systems for medical image segmentation and plays an important role in obtaining robust and transformation-invariant predictions. However, it has seldom been used at test time for segmentation and not been formulated in a consistent mathematical framework. In this paper, we first propose a theoretical formulation of test-time augmentation for deep learning in image recognition, where the prediction is obtained through estimating its expectation by Monte Carlo simulation with prior distributions of parameters in an image acquisition model that involves image transformations and noise. We then propose a novel uncertainty estimation method based on the formulated test-time augmentation. Experiments with segmentation of fetal brains and brain tumors from 2D and 3D Magnetic Resonance Images (MRI) showed that 1) our test-time augmentation outperforms a single-prediction baseline and dropout-based multiple predictions, and 2) it provides a better uncertainty estimation than calculating the model-based uncertainty alone and helps to reduce overconfident incorrect predictions.

This paper presents a new multi-objective deep reinforcement learning (MODRL) framework based on deep Q-networks. We propose the use of linear and non-linear methods to develop the MODRL framework that includes both single-policy and multi-policy strategies. The experimental results on two benchmark problems including the two-objective deep sea treasure environment and the three-objective mountain car problem indicate that the proposed framework is able to converge to the optimal Pareto solutions effectively. The proposed framework is generic, which allows implementation of different deep reinforcement learning algorithms in different complex environments. This therefore overcomes many difficulties involved with standard multi-objective reinforcement learning (MORL) methods existing in the current literature. The framework creates a platform as a testbed environment to develop methods for solving various problems associated with the current MORL. Details of the framework implementation can be referred to //www.deakin.edu.au/~thanhthi/drl.htm.

Medical image segmentation requires consensus ground truth segmentations to be derived from multiple expert annotations. A novel approach is proposed that obtains consensus segmentations from experts using graph cuts (GC) and semi supervised learning (SSL). Popular approaches use iterative Expectation Maximization (EM) to estimate the final annotation and quantify annotator's performance. Such techniques pose the risk of getting trapped in local minima. We propose a self consistency (SC) score to quantify annotator consistency using low level image features. SSL is used to predict missing annotations by considering global features and local image consistency. The SC score also serves as the penalty cost in a second order Markov random field (MRF) cost function optimized using graph cuts to derive the final consensus label. Graph cut obtains a global maximum without an iterative procedure. Experimental results on synthetic images, real data of Crohn's disease patients and retinal images show our final segmentation to be accurate and more consistent than competing methods.

The per-pixel cross-entropy loss (CEL) has been widely used in structured output prediction tasks as a spatial extension of generic image classification. However, its i.i.d. assumption neglects the structural regularity present in natural images. Various attempts have been made to incorporate structural reasoning mostly through structure priors in a cooperative way where co-occuring patterns are encouraged. We, on the other hand, approach this problem from an opposing angle and propose a new framework for training such structured prediction networks via an adversarial process, in which we train a structure analyzer that provides the supervisory signals, the adversarial structure matching loss (ASML). The structure analyzer is trained to maximize ASML, or to exaggerate recurring structural mistakes usually among co-occurring patterns. On the contrary, the structured output prediction network is trained to reduce those mistakes and is thus enabled to distinguish fine-grained structures. As a result, training structured output prediction networks using ASML reduces contextual confusion among objects and improves boundary localization. We demonstrate that ASML outperforms its counterpart CEL especially in context and boundary aspects on figure-ground segmentation and semantic segmentation tasks with various base architectures, such as FCN, U-Net, DeepLab, and PSPNet.

We propose a novel locally adaptive learning estimator for enhancing the inter- and intra- discriminative capabilities of Deep Neural Networks, which can be used as improved loss layer for semantic image segmentation tasks. Most loss layers compute pixel-wise cost between feature maps and ground truths, ignoring spatial layouts and interactions between neighboring pixels with same object category, and thus networks cannot be effectively sensitive to intra-class connections. Stride by stride, our method firstly conducts adaptive pooling filter operating over predicted feature maps, aiming to merge predicted distributions over a small group of neighboring pixels with same category, and then it computes cost between the merged distribution vector and their category label. Such design can make groups of neighboring predictions from same category involved into estimations on predicting correctness with respect to their category, and hence train networks to be more sensitive to regional connections between adjacent pixels based on their categories. In the experiments on Pascal VOC 2012 segmentation datasets, the consistently improved results show that our proposed approach achieves better segmentation masks against previous counterparts.

We propose an Active Learning approach to image segmentation that exploits geometric priors to streamline the annotation process. We demonstrate this for both background-foreground and multi-class segmentation tasks in 2D images and 3D image volumes. Our approach combines geometric smoothness priors in the image space with more traditional uncertainty measures to estimate which pixels or voxels are most in need of annotation. For multi-class settings, we additionally introduce two novel criteria for uncertainty. In the 3D case, we use the resulting uncertainty measure to show the annotator voxels lying on the same planar patch, which makes batch annotation much easier than if they were randomly distributed in the volume. The planar patch is found using a branch-and-bound algorithm that finds a patch with the most informative instances. We evaluate our approach on Electron Microscopy and Magnetic Resonance image volumes, as well as on regular images of horses and faces. We demonstrate a substantial performance increase over state-of-the-art approaches.