We present a novel method to explicitly incorporate topological prior knowledge into deep learning based segmentation, which is, to our knowledge, the first work to do so. Our method uses the concept of persistent homology, a tool from topological data analysis, to capture high-level topological characteristics of segmentation results in a way which is differentiable with respect to the pixelwise probability of being assigned to a given class. The topological prior knowledge consists of the sequence of desired Betti numbers of the segmentation. As a proof-of-concept we demonstrate our approach by applying it to the problem of left-ventricle segmentation of cardiac MR images of 500 subjects from the UK Biobank dataset, where we show that it improves segmentation performance in terms of topological correctness without sacrificing pixelwise accuracy.
Persistent homology has previously been applied to the problem of semantic segmentation, such as in @cite_19 @cite_12 @cite_14 . The important distinction between our method and these previous works is that they apply PH to the input image to extract features, which are then used as inputs to some other algorithm for training. Such approaches can capture complex features of the input images but require those topological features to be directly extractable from the raw image data. Our approach instead processes the image with a CNN and it is the output of the CNN, representing the pixelwise likelihood of the structure we want to segment, which has PH applied to it.
@cite_19 @cite_14 @cite_12
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Topological tools provide features about spaces, which are insensitive to continuous deformations. Applied to images, the topological analysis reveals important characteristics: how many connected components are present, which ones have holes and how many, how are they related one to another, how to measure them and find their locations. We show in this paper that the extraction of such features by computing persistent homology is suitable for grayscale image segmentation. The topic of semantic segmentation has witnessed considerable progress due to the powerful features learned by convolutional neural networks (CNNs) [13]. The current leading approaches for semantic segmentation exploit shape information by extracting CNN features from masked image regions. This strategy introduces artificial boundaries on the images and may impact the quality of the extracted features. Besides, the operations on the raw image domain require to compute thousands of networks on a single image, which is time-consuming. In this paper, we propose to exploit shape information via masking convolutional features. The proposal segments (e.g., super-pixels) are treated as masks on the convolutional feature maps. The CNN features of segments are directly masked out from these maps and used to train classifiers for recognition. We further propose a joint method to handle objects and “stuff” (e.g., grass, sky, water) in the same framework. State-of-the-art results are demonstrated on benchmarks of PASCAL VOC and new PASCAL-CONTEXT, with a compelling computational speed. Abstract The segmentation of infant brain tissue images into white matter (WM), gray matter (GM), and cerebrospinal fluid (CSF) plays an important role in studying early brain development in health and disease. In the isointense stage (approximately 6–8 months of age), WM and GM exhibit similar levels of intensity in both T1 and T2 MR images, making the tissue segmentation very challenging. Only a small number of existing methods have been designed for tissue segmentation in this isointense stage; however, they only used a single T1 or T2 images, or the combination of T1 and T2 images. In this paper, we propose to use deep convolutional neural networks (CNNs) for segmenting isointense stage brain tissues using multi-modality MR images. CNNs are a type of deep models in which trainable filters and local neighborhood pooling operations are applied alternatingly on the raw input images, resulting in a hierarchy of increasingly complex features. Specifically, we used multi-modality information from T1, T2, and fractional anisotropy (FA) images as inputs and then generated the segmentation maps as outputs. The multiple intermediate layers applied convolution, pooling, normalization, and other operations to capture the highly nonlinear mappings between inputs and outputs. We compared the performance of our approach with that of the commonly used segmentation methods on a set of manually segmented isointense stage brain images. Results showed that our proposed model significantly outperformed prior methods on infant brain tissue segmentation. In addition, our results indicated that integration of multi-modality images led to significant performance improvement. State-of-the-art approaches for semantic image segmentation are built on Convolutional Neural Networks (CNNs). The typical segmentation architecture is composed of (a) a downsampling path responsible for extracting coarse semantic features, followed by (b) an upsampling path trained to recover the input image resolution at the output of the model and, optionally, (c) a post-processing module (e.g. Conditional Random Fields) to refine the model predictions.,,,,,, Recently, a new CNN architecture, Densely Connected Convolutional Networks (DenseNets), has shown excellent results on image classification tasks. The idea of DenseNets is based on the observation that if each layer is directly connected to every other layer in a feed-forward fashion then the network will be more accurate and easier to train.,,,,,, In this paper, we extend DenseNets to deal with the problem of semantic segmentation. We achieve state-of-the-art results on urban scene benchmark datasets such as CamVid and Gatech, without any further post-processing module nor pretraining. Moreover, due to smart construction of the model, our approach has much less parameters than currently published best entries for these datasets. Automated tumor segmentation in Hematoxylin & Eosin stained histology images is an essential step towards a computer-aided diagnosis system. In this work we propose a novel tumor segmentation approach for a histology whole-slide image (WSI) by exploring the degree of connectivity among nuclei using the novel idea of persistent homology profiles. Our approach is based on 3 steps: 1) selection of exemplar patches from the training dataset using convolutional neural networks (CNNs); 2) construction of persistent homology profiles based on topological features; 3) classification using variant of k-nearest neighbors (k-NN). Extensive experimental results favor our algorithm over a conventional CNN. We introduce a novel strategy for learning to extract semantically meaningful features from aerial imagery. Instead of manually labeling the aerial imagery, we propose to predict (noisy) semantic features automatically extracted from co-located ground imagery. Our network architecture takes an aerial image as input, extracts features using a convolutional neural network, and then applies an adaptive transformation to map these features into the ground-level perspective. We use an end-to-end learning approach to minimize the difference between the semantic segmentation extracted directly from the ground image and the semantic segmentation predicted solely based on the aerial image. We show that a model learned using this strategy, with no additional training, is already capable of rough semantic labeling of aerial imagery. Furthermore, we demonstrate that by finetuning this model we can achieve more accurate semantic segmentation than two baseline initialization strategies. We use our network to address the task of estimating the geolocation and geo-orientation of a ground image. Finally, we show how features extracted from an aerial image can be used to hallucinate a plausible ground-level panorama. State-of-the-art approaches for semantic image segmentation are built on Convolutional Neural Networks (CNNs). The typical segmentation architecture is composed of (a) a downsampling path responsible for extracting coarse semantic features, followed by (b) an upsampling path trained to recover the input image resolution at the output of the model and, optionally, (c) a post-processing module (e.g. Conditional Random Fields) to refine the model predictions. Recently, a new CNN architecture, Densely Connected Convolutional Networks (DenseNets), has shown excellent results on image classification tasks. The idea of DenseNets is based on the observation that if each layer is directly connected to every other layer in a feed-forward fashion then the network will be more accurate and easier to train. In this paper, we extend DenseNets to deal with the problem of semantic segmentation. We achieve state-of-the-art results on urban scene benchmark datasets such as CamVid and Gatech, without any further post-processing module nor pretraining. Moreover, due to smart construction of the model, our approach has much less parameters than currently published best entries for these datasets. Code to reproduce the experiments is available here : this https URL Incorporating multi-scale features in fully convolutional neural networks (FCNs) has been a key element to achieving state-of-the-art performance on semantic image segmentation. One common way to extract multi-scale features is to feed multiple resized input images to a shared deep network and then merge the resulting features for pixelwise classification. In this work, we propose an attention mechanism that learns to softly weight the multi-scale features at each pixel location. We adapt a state-of-the-art semantic image segmentation model, which we jointly train with multi-scale input images and the attention model. The proposed attention model not only outperforms average- and max-pooling, but allows us to diagnostically visualize the importance of features at different positions and scales. Moreover, we show that adding extra supervision to the output at each scale is essential to achieving excellent performance when merging multi-scale features. We demonstrate the effectiveness of our model with extensive experiments on three challenging datasets, including PASCAL-Person-Part, PASCAL VOC 2012 and a subset of MS-COCO 2014. Incorporating multi-scale features in fully convolutional neural networks (FCNs) has been a key element to achieving state-of-the-art performance on semantic image segmentation. One common way to extract multi-scale features is to feed multiple resized input images to a shared deep network and then merge the resulting features for pixelwise classification. In this work, we propose an attention mechanism that learns to softly weight the multi-scale features at each pixel location. We adapt a state-of-the-art semantic image segmentation model, which we jointly train with multi-scale input images and the attention model. The proposed attention model not only outperforms averageand max-pooling, but allows us to diagnostically visualize the importance of features at different positions and scales. Moreover, we show that adding extra supervision to the output at each scale is essential to achieving excellent performance when merging multi-scale features. We demonstrate the effectiveness of our model with extensive experiments on three challenging datasets, including PASCAL-Person-Part, PASCAL VOC 2012 and a subset of MS-COCO 2014. In this paper, we present a novel method for real-time 3D hand pose estimation from single depth images using 3D Convolutional Neural Networks (CNNs). Image-based features extracted by 2D CNNs are not directly suitable for 3D hand pose estimation due to the lack of 3D spatial information. Our proposed 3D CNN-based method, taking a 3D volumetric representation of the hand depth image as input and extracting 3D features from the volumetric input, can capture the 3D spatial structure of the hand and accurately regress full 3D hand pose in a single pass. In order to make the 3D CNN robust to variations in hand sizes and global orientations, we perform 3D data augmentation on the training data. To further improve the estimation accuracy, we propose applying the 3D deep network architectures and leveraging the complete hand surface as intermediate supervision for learning 3D hand pose from depth images. Extensive experiments on three challenging datasets demonstrate that our proposed approach outperforms baselines and state-of-the-art methods. A cross-dataset experiment also shows that our method has good generalization ability. Furthermore, our method is fast as our implementation runs at over 91 frames per second on a standard computer with a single GPU. This paper presents GridNet, a new Convolutional Neural Network (CNN) architecture for semantic image segmentation (full scene labelling). Classical neural networks are implemented as one stream from the input to the output with subsampling operators applied in the stream in order to reduce the feature maps size and to increase the receptive field for the final prediction. However, for semantic image segmentation, where the task consists in providing a semantic class to each pixel of an image, feature maps reduction is harmful because it leads to a resolution loss in the output prediction. To tackle this problem, our GridNet follows a grid pattern allowing multiple interconnected streams to work at different resolutions. We show that our network generalizes many well known networks such as conv-deconv, residual or U-Net networks. GridNet is trained from scratch and achieves competitive results on the Cityscapes dataset. We consider the automated recognition of human actions in surveillance videos. Most current methods build classifiers based on complex handcrafted features computed from the raw inputs. Convolutional neural networks (CNNs) are a type of deep model that can act directly on the raw inputs. However, such models are currently limited to handling 2D inputs. In this paper, we develop a novel 3D CNN model for action recognition. This model extracts features from both the spatial and the temporal dimensions by performing 3D convolutions, thereby capturing the motion information encoded in multiple adjacent frames. The developed model generates multiple channels of information from the input frames, and the final feature representation combines information from all channels. To further boost the performance, we propose regularizing the outputs with high-level features and combining the predictions of a variety of different models. We apply the developed models to recognize human actions in the real-world environment of airport surveillance videos, and they achieve superior performance in comparison to baseline methods. We propose a method for extracting very accurate masks of hands in egocentric views. Our method is based on a novel Deep Learning architecture: In contrast with current Deep Learning methods, we do not use upscaling layers applied to a low-dimensional representation of the input image. Instead, we extract features with convolutional layers and map them directly to a segmentation mask with a fully connected layer. We show that this approach, when applied in a multi-scale fashion, is both accurate and efficient enough for real-time. We demonstrate it on a new dataset made of images captured in various environments, from the outdoors to offices. This paper describes a deep learning approach to semantic segmentation of very high resolution (aerial) images. Deep neural architectures hold the promise of end-to-end learning from raw images, making heuristic feature design obsolete. Over the last decade this idea has seen a revival, and in recent years deep convolutional neural networks (CNNs) have emerged as the method of choice for a range of image interpretation tasks like visual recognition and object detection. Still, standard CNNs do not lend themselves to per-pixel semantic segmentation, mainly because one of their fundamental principles is to gradually aggregate information over larger and larger image regions, making it hard to disentangle contributions from different pixels. Very recently two extensions of the CNN framework have made it possible to trace the semantic information back to a precise pixel position: deconvolutional network layers undo the spatial downsampling, and Fully Convolution Networks (FCNs) modify the fully connected classification layers of the network in such a way that the location of individual activations remains explicit. We design a FCN which takes as input intensity and range data and, with the help of aggressive deconvolution and recycling of early network layers, converts them into a pixelwise classification at full resolution. We discuss design choices and intricacies of such a network, and demonstrate that an ensemble of several networks achieves excellent results on challenging data such as the ISPRS semantic labeling benchmark, using only the raw data as input. Sea–land segmentation and ship detection are two prevalent research domains for optical remote sensing harbor images and can find many applications in harbor supervision and management. As the spatial resolution of imaging technology improves, traditional methods struggle to perform well due to the complicated appearance and background distributions. In this paper, we unify the above two tasks into a single framework and apply the deep convolutional neural networks to predict pixelwise label for an input. Specifically, an edge aware convolutional network is proposed to parse a remote sensing harbor image into three typical objects, e.g., sea, land, and ship. Two innovations are made on top of the deep structure. First, we design a multitask model by simultaneously training the segmentation and edge detection networks. Hierarchical semantic features from the segmentation network are extracted to learn the edge network. Second, the outputs of edge pipeline are further employed to refine entire model by adding an edge aware regularization, which helps our method to yield very desirable results that are spatially consistent and well boundary located. It also benefits the segmentation of docked ships that are quite challenging for many previous methods. Experimental results on two datasets collected from Google Earth have demonstrated the effectiveness of our approach both in quantitative and qualitative performance compared with state-of-the-art methods. Numerous efforts have been made to design various low-level saliency cues for RGBD saliency detection, such as color and depth contrast features as well as background and color compactness priors. However, how these low-level saliency cues interact with each other and how they can be effectively incorporated to generate a master saliency map remain challenging problems. In this paper, we design a new convolutional neural network (CNN) to automatically learn the interaction mechanism for RGBD salient object detection. In contrast to existing works, in which raw image pixels are fed directly to the CNN, the proposed method takes advantage of the knowledge obtained in traditional saliency detection by adopting various flexible and interpretable saliency feature vectors as inputs. This guides the CNN to learn a combination of existing features to predict saliency more effectively, which presents a less complex problem than operating on the pixels directly. We then integrate a superpixel-based Laplacian propagation framework with the trained CNN to extract a spatially consistent saliency map by exploiting the intrinsic structure of the input image. Extensive quantitative and qualitative experimental evaluations on three data sets demonstrate that the proposed method consistently outperforms the state-of-the-art methods. In this work we describe a Convolutional Neural Network (CNN) to accurately predict the scene illumination. Taking image patches as input, the CNN works in the spatial domain without using hand-crafted features that are employed by most previous methods. The network consists of one convolutional layer with max pooling, one fully connected layer and three output nodes. Within the network structure, feature learning and regression are integrated into one optimization process, which leads to a more effective model for estimating scene illumination. This approach achieves state-of-the-art performance on a standard dataset of RAW images. Preliminary experiments on images with spatially varying illumination demonstrate the stability of the local illuminant estimation ability of our CNN. While 360° cameras offer tremendous new possibilities in vision, graphics, and augmented reality, the spherical images they produce make core feature extraction non-trivial. Convolutional neural networks (CNNs) trained on images from perspective cameras yield “flat" filters, yet 360° images cannot be projected to a single plane without significant distortion. A naive solution that repeatedly projects the viewing sphere to all tangent planes is accurate, but much too computationally intensive for real problems. We propose to learn a spherical convolutional network that translates a planar CNN to process 360° imagery directly in its equirectangular projection. Our approach learns to reproduce the flat filter outputs on 360° data, sensitive to the varying distortion effects across the viewing sphere. The key benefits are 1) efficient feature extraction for 360° images and video, and 2) the ability to leverage powerful pre-trained networks researchers have carefully honed (together with massive labeled image training sets) for perspective images. We validate our approach compared to several alternative methods in terms of both raw CNN output accuracy as well as applying a state-of-the-art “flat" object detector to 360° data. Our method yields the most accurate results while saving orders of magnitude in computation versus the existing exact reprojection solution. We propose an approach for exploiting contextual information in semantic image segmentation, and particularly investigate the use of patch-patch context and patch-background context in deep CNNs. We formulate deep structured models by combining CNNs and Conditional Random Fields (CRFs) for learning the patch-patch context between image regions. Specifically, we formulate CNN-based pairwise potential functions to capture semantic correlations between neighboring patches. Efficient piecewise training of the proposed deep structured model is then applied in order to avoid repeated expensive CRF inference during the course of back propagation. For capturing the patch-background context, we show that a network design with traditional multi-scale image inputs and sliding pyramid pooling is very effective for improving performance. We perform comprehensive evaluation of the proposed method. We achieve new state-of-the-art performance on a number of challenging semantic segmentation datasets. We present a two-module approach to semantic segmentation that incorporates Convolutional Networks (CNNs) and Graphical Models. Graphical models are used to generate a small (5-30) set of diverse segmentations proposals, such that this set has high recall. Since the number of required proposals is so low, we can extract fairly complex features to rank them. Our complex feature of choice is a novel CNN called SegNet, which directly outputs a (coarse) semantic segmentation. Importantly, SegNet is specifically trained to optimize the corpus-level PASCAL IOU loss function. To the best of our knowledge, this is the first CNN specifically designed for semantic segmentation. This two-module approach achieves @math on the PASCAL 2012 segmentation challenge.