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Acquiring sufficient ground-truth supervision to train deep visual models has been a bottleneck over the years due to the data-hungry nature of deep learning. This is exacerbated in some structured prediction tasks, such as semantic segmentation, which requires pixel-level annotations. This work addresses weakly supervised semantic segmentation (WSSS), with the goal of bridging the gap between image-level annotations and pixel-level segmentation. We formulate WSSS as a novel group-wise learning task that explicitly models semantic dependencies in a group of images to estimate more reliable pseudo ground-truths, which can be used for training more accurate segmentation models. In particular, we devise a graph neural network (GNN) for group-wise semantic mining, wherein input images are represented as graph nodes, and the underlying relations between a pair of images are characterized by an efficient co-attention mechanism. Moreover, in order to prevent the model from paying excessive attention to common semantics only, we further propose a graph dropout layer, encouraging the model to learn more accurate and complete object responses. The whole network is end-to-end trainable by iterative message passing, which propagates interaction cues over the images to progressively improve the performance. We conduct experiments on the popular PASCAL VOC 2012 and COCO benchmarks, and our model yields state-of-the-art performance. Our code is available at: //github.com/Lixy1997/Group-WSSS.

In this paper, we address the problem of image anomaly detection and segmentation. Anomaly detection involves making a binary decision as to whether an input image contains an anomaly, and anomaly segmentation aims to locate the anomaly on the pixel level. Support vector data description (SVDD) is a long-standing algorithm used for an anomaly detection, and we extend its deep learning variant to the patch-based method using self-supervised learning. This extension enables anomaly segmentation and improves detection performance. As a result, anomaly detection and segmentation performances measured in AUROC on MVTec AD dataset increased by 9.8% and 7.0%, respectively, compared to the previous state-of-the-art methods. Our results indicate the efficacy of the proposed method and its potential for industrial application. Detailed analysis of the proposed method offers insights regarding its behavior, and the code is available online.

In recent years, Fully Convolutional Networks (FCN) has been widely used in various semantic segmentation tasks, including multi-modal remote sensing imagery. How to fuse multi-modal data to improve the segmentation performance has always been a research hotspot. In this paper, a novel end-toend fully convolutional neural network is proposed for semantic segmentation of natural color, infrared imagery and Digital Surface Models (DSM). It is based on a modified DeepUNet and perform the segmentation in a multi-task way. The channels are clustered into groups and processed on different task pipelines. After a series of segmentation and fusion, their shared features and private features are successfully merged together. Experiment results show that the feature fusion network is efficient. And our approach achieves good performance in ISPRS Semantic Labeling Contest (2D).

Fully convolutional deep neural networks have been asserted to be fast and precise frameworks with great potential in image segmentation. One of the major challenges in utilizing such networks raises when data is unbalanced, which is common in many medical imaging applications such as lesion segmentation where lesion class voxels are often much lower in numbers than non-lesion voxels. A trained network with unbalanced data may make predictions with high precision and low recall, being severely biased towards the non-lesion class which is particularly undesired in medical applications where false negatives are actually more important than false positives. Various methods have been proposed to address this problem including two step training, sample re-weighting, balanced sampling, and similarity loss functions. In this paper we developed a patch-wise 3D densely connected network with an asymmetric loss function, where we used large overlapping image patches for intrinsic and extrinsic data augmentation, a patch selection algorithm, and a patch prediction fusion strategy based on B-spline weighted soft voting to take into account the uncertainty of prediction in patch borders. We applied this method to lesion segmentation based on the MSSEG 2016 and ISBI 2015 challenges, where we achieved average Dice similarity coefficient of 69.9% and 65.74%, respectively. In addition to the proposed loss, we trained our network with focal and generalized Dice loss functions. Significant improvement in $F_1$ and $F_2$ scores and the APR curve was achieved in test using the asymmetric similarity loss layer and our 3D patch prediction fusion. The asymmetric similarity loss based on $F_\beta$ scores generalizes the Dice similarity coefficient and can be effectively used with the patch-wise strategy developed here to train fully convolutional deep neural networks for highly unbalanced image segmentation.

Simultaneous segmentation of multiple organs from different medical imaging modalities is a crucial task as it can be utilized for computer-aided diagnosis, computer-assisted surgery, and therapy planning. Thanks to the recent advances in deep learning, several deep neural networks for medical image segmentation have been introduced successfully for this purpose. In this paper, we focus on learning a deep multi-organ segmentation network that labels voxels. In particular, we examine the critical choice of a loss function in order to handle the notorious imbalance problem that plagues both the input and output of a learning model. The input imbalance refers to the class-imbalance in the input training samples (i.e. small foreground objects embedded in an abundance of background voxels, as well as organs of varying sizes). The output imbalance refers to the imbalance between the false positives and false negatives of the inference model. We introduce a loss function that integrates a weighted cross-entropy with a Dice similarity coefficient to tackle both types of imbalance during training and inference. We evaluated the proposed loss function on three datasets of whole body PET scans with 5 target organs, MRI prostate scans, and ultrasound echocardigraphy images with a single target organ. We show that a simple network architecture with the proposed integrative loss function can outperform state-of-the-art methods and results of the competing methods can be improved when our proposed loss is used.

Convolutional networks (ConvNets) have achieved great successes in various challenging vision tasks. However, the performance of ConvNets would degrade when encountering the domain shift. The domain adaptation is more significant while challenging in the field of biomedical image analysis, where cross-modality data have largely different distributions. Given that annotating the medical data is especially expensive, the supervised transfer learning approaches are not quite optimal. In this paper, we propose an unsupervised domain adaptation framework with adversarial learning for cross-modality biomedical image segmentations. Specifically, our model is based on a dilated fully convolutional network for pixel-wise prediction. Moreover, we build a plug-and-play domain adaptation module (DAM) to map the target input to features which are aligned with source domain feature space. A domain critic module (DCM) is set up for discriminating the feature space of both domains. We optimize the DAM and DCM via an adversarial loss without using any target domain label. Our proposed method is validated by adapting a ConvNet trained with MRI images to unpaired CT data for cardiac structures segmentations, and achieved very promising results.

We propose an unsupervised method using self-clustering convolutional adversarial autoencoders to classify prostate tissue as tumor or non-tumor without any labeled training data. The clustering method is integrated into the training of the autoencoder and requires only little post-processing. Our network trains on hematoxylin and eosin (H&E) input patches and we tested two different reconstruction targets, H&E and immunohistochemistry (IHC). We show that antibody-driven feature learning using IHC helps the network to learn relevant features for the clustering task. Our network achieves a F1 score of 0.62 using only a small set of validation labels to assign classes to clusters.

This work presents a region-growing image segmentation approach based on superpixel decomposition. From an initial contour-constrained over-segmentation of the input image, the image segmentation is achieved by iteratively merging similar superpixels into regions. This approach raises two key issues: (1) how to compute the similarity between superpixels in order to perform accurate merging and (2) in which order those superpixels must be merged together. In this perspective, we firstly introduce a robust adaptive multi-scale superpixel similarity in which region comparisons are made both at content and common border level. Secondly, we propose a global merging strategy to efficiently guide the region merging process. Such strategy uses an adpative merging criterion to ensure that best region aggregations are given highest priorities. This allows to reach a final segmentation into consistent regions with strong boundary adherence. We perform experiments on the BSDS500 image dataset to highlight to which extent our method compares favorably against other well-known image segmentation algorithms. The obtained results demonstrate the promising potential of the proposed approach.

A novel multi-atlas based image segmentation method is proposed by integrating a semi-supervised label propagation method and a supervised random forests method in a pattern recognition based label fusion framework. The semi-supervised label propagation method takes into consideration local and global image appearance of images to be segmented and segments the images by propagating reliable segmentation results obtained by the supervised random forests method. Particularly, the random forests method is used to train a regression model based on image patches of atlas images for each voxel of the images to be segmented. The regression model is used to obtain reliable segmentation results to guide the label propagation for the segmentation. The proposed method has been compared with state-of-the-art multi-atlas based image segmentation methods for segmenting the hippocampus in MR images. The experiment results have demonstrated that our method obtained superior segmentation performance.

As a basic task in computer vision, semantic segmentation can provide fundamental information for object detection and instance segmentation to help the artificial intelligence better understand real world. Since the proposal of fully convolutional neural network (FCNN), it has been widely used in semantic segmentation because of its high accuracy of pixel-wise classification as well as high precision of localization. In this paper, we apply several famous FCNN to brain tumor segmentation, making comparisons and adjusting network architectures to achieve better performance measured by metrics such as precision, recall, mean of intersection of union (mIoU) and dice score coefficient (DSC). The adjustments to the classic FCNN include adding more connections between convolutional layers, enlarging decoders after up sample layers and changing the way shallower layers' information is reused. Besides the structure modification, we also propose a new classifier with a hierarchical dice loss. Inspired by the containing relationship between classes, the loss function converts multiple classification to multiple binary classification in order to counteract the negative effect caused by imbalance data set. Massive experiments have been done on the training set and testing set in order to assess our refined fully convolutional neural networks and new types of loss function. Competitive figures prove they are more effective than their predecessors.