Predicting protein properties such as solvent accessibility and secondary structure from its primary amino acid sequence is an important task in bioinformatics. Recently, a few deep learning models have surpassed the traditional window based multilayer perceptron. Taking inspiration from the image classification domain we propose a deep convolutional neural network architecture, MUST-CNN, to predict protein properties. This architecture uses a novel multilayer shift-and-stitch (MUST) technique to generate fully dense per-position predictions on protein sequences. Our model is significantly simpler than the state-of-the-art, yet achieves better results. By combining MUST and the efficient convolution operation, we can consider far more parameters while retaining very fast prediction speeds. We beat the state-of-the-art performance on two large protein property prediction datasets.
In the image domain, @cite_15 has beaten the state-of-the-art on image classification by a large percentage through using a deep multilayer convolutional network in the ImageNet Large-Scale Visual Recognition Challenge. Scene labeling is the task of labeling each pixel of an image with one of several classes, a 2D analogue of protein property prediction. @cite_19 uses a recurrent neural network to obtain state-of-the-art results on scene labeling without any feature engineering. @cite_24 designs fully convolutional networks for dense pixel prediction by running several convolutional networks on different scales. @cite_20 increases the resolution of a bounding box based image classifier by introducing the shift-and-stitch technique, which we use on sequences instead of images and on the entire model instead of only on the last layer.
@cite_24 @cite_19 @cite_15 @cite_20
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Scene labeling can be seen as a sequence-sequence prediction task (pixels-labels), and it is quite important to leverage relevant context to enhance the performance of pixel classification. In this paper, we introduce an episodic attention-based memory network to achieve the goal. We present a unified framework that mainly consists of a Convolutional Neural Network (CNN), specifically, Fully Convolutional Network (FCN) and an attention-based memory module with feedback connections to perform context selection and refinement. The full model produces context-aware representation for each target patch by aggregating the activated context and its original local representation produced by the convolution layers. We evaluate our model on PASCAL Context, SIFT Flow and PASCAL VOC 2011 datasets and achieve competitive results to other state-of-the-art methods in scene labeling. Recent approaches for instance-aware semantic labeling have augmented convolutional neural networks (CNNs) with complex multi-task architectures or computationally expensive graphical models. We present a method that leverages a fully convolutional network (FCN) to predict semantic labels, depth and an instance-based encoding using each pixel’s direction towards its corresponding instance center. Subsequently, we apply low-level computer vision techniques to generate state-of-the-art instance segmentation on the street scene datasets KITTI and Cityscapes. Our approach outperforms existing works by a large margin and can additionally predict absolute distances of individual instances from a monocular image as well as a pixel-level semantic labeling. Scene labeling is a challenging computer vision task. It requires the use of both local discriminative features and global context information. We adopt a deep recurrent convolutional neural network (RCNN) for this task, which is originally proposed for object recognition. Different from traditional convolutional neural networks (CNN), this model has intra-layer recurrent connections in the convolutional layers. Therefore each convolutional layer becomes a two-dimensional recurrent neural network. The units receive constant feed-forward inputs from the previous layer and recurrent inputs from their neighborhoods. While recurrent iterations proceed, the region of context captured by each unit expands. In this way, feature extraction and context modulation are seamlessly integrated, which is different from typical methods that entail separate modules for the two steps. To further utilize the context, a multi-scale RCNN is proposed. Over two benchmark datasets, Standford Background and Sift Flow, the model outperforms many state-of-the-art models in accuracy and efficiency. Pixel wise image labeling is an interesting and challenging problem with great significance in the computer vision community. In order for a dense labeling algorithm to be able to achieve accurate and precise results, it has to consider the dependencies that exist in the joint space of both the input and the output variables. An implicit approach for modeling those dependencies is by training a deep neural network that, given as input an initial estimate of the output labels and the input image, it will be able to predict a new refined estimate for the labels. In this context, our work is concerned with what is the optimal architecture for performing the label improvement task. We argue that the prior approaches of either directly predicting new label estimates or predicting residual corrections w.r.t. the initial labels with feed-forward deep network architectures are sub-optimal. Instead, we propose a generic architecture that decomposes the label improvement task to three steps: 1) detecting the initial label estimates that are incorrect, 2) replacing the incorrect labels with new ones, and finally 3) refining the renewed labels by predicting residual corrections w.r.t. them. Furthermore, we explore and compare various other alternative architectures that consist of the aforementioned Detection, Replace, and Refine components. We extensively evaluate the examined architectures in the challenging task of dense disparity estimation (stereo matching) and we report both quantitative and qualitative results on three different datasets. Finally, our dense disparity estimation network that implements the proposed generic architecture, achieves state-of-the-art results in the KITTI 2015 test surpassing prior approaches by a significant margin. We plan to release the Torch code that implements the paper in: https: github.com gidariss DRR_struct_pred . Semantic labeling (or pixel-level land-cover classification) in ultrahigh-resolution imagery (<10 cm) requires statistical models able to learn high-level concepts from spatial data, with large appearance variations. Convolutional neural networks (CNNs) achieve this goal by learning discriminatively a hierarchy of representations of increasing abstraction. In this paper, we present a CNN-based system relying on a downsample-then-upsample architecture. Specifically, it first learns a rough spatial map of high-level representations by means of convolutions and then learns to upsample them back to the original resolution by deconvolutions. By doing so, the CNN learns to densely label every pixel at the original resolution of the image. This results in many advantages, including: 1) the state-of-the-art numerical accuracy; 2) the improved geometric accuracy of predictions; and 3) high efficiency at inference time. We test the proposed system on the Vaihingen and Potsdam subdecimeter resolution data sets, involving the semantic labeling of aerial images of 9- and 5-cm resolution, respectively. These data sets are composed by many large and fully annotated tiles, allowing an unbiased evaluation of models making use of spatial information. We do so by comparing two standard CNN architectures with the proposed one: standard patch classification, prediction of local label patches by employing only convolutions, and full patch labeling by employing deconvolutions. All the systems compare favorably or outperform a state-of-the-art baseline relying on superpixels and powerful appearance descriptors. The proposed full patch labeling CNN outperforms these models by a large margin, also showing a very appealing inference time. Convolutional neural networks (CNNs) have made remarkable progress on scene recognition, partially due to these recent large-scale scene datasets, such as the Places and Places2. Scene categories are often defined by multi-level information, including local objects, global layout, and background environment, thus leading to large intra-class variations. In addition, with the increasing number of scene categories, label ambiguity has become another crucial issue in large-scale classification. This paper focuses on large-scale scene recognition and makes two major contributions to tackle these issues. First, we propose a multi-resolution CNN architecture that captures visual content and structure at multiple levels. The multi-resolution CNNs are composed of coarse resolution CNNs and fine resolution CNNs, which are complementary to each other. Second, we design two knowledge guided disambiguation techniques to deal with the problem of label ambiguity: 1) we exploit the knowledge from the confusion matrix computed on validation data to merge ambiguous classes into a super category and 2) we utilize the knowledge of extra networks to produce a soft label for each image. Then, the super categories or soft labels are employed to guide CNN training on the Places2. We conduct extensive experiments on three large-scale image datasets (ImageNet, Places, and Places2), demonstrating the effectiveness of our approach. Furthermore, our method takes part in two major scene recognition challenges, and achieves the second place at the Places2 challenge in ILSVRC 2015, and the first place at the LSUN challenge in CVPR 2016. Finally, we directly test the learned representations on other scene benchmarks, and obtain the new state-of-the-art results on the MIT Indoor67 (86.7 ) and SUN397 (72.0 ). We release the code and models at https: github.com wanglimin MRCNN-Scene-Recognition . Deep convolution neural networks (CNN) have demonstrated advanced performance on single-label image classification, and various progress also have been made to apply CNN methods on multi-label image classification, which requires to annotate objects, attributes, scene categories etc. in a single shot. Recent state-of-the-art approaches to multi-label image classification exploit the label dependencies in an image, at global level, largely improving the labeling capacity. However, predicting small objects and visual concepts is still challenging due to the limited discrimination of the global visual features. In this paper, we propose a Regional Latent Semantic Dependencies model (RLSD) to address this problem. The utilized model includes a fully convolutional localization architecture to localize the regions that may contain multiple highly-dependent labels. The localized regions are further sent to the recurrent neural networks (RNN) to characterize the latent semantic dependencies at the regional level. Experimental results on several benchmark datasets show that our proposed model achieves the best performance compared to the state-of-the-art models, especially for predicting small objects occurred in the images. In addition, we set up an upper bound model (RLSD+ft-RPN) using bounding box coordinates during training, the experimental results also show that our RLSD can approach the upper bound without using the bounding-box annotations, which is more realistic in the real world. Scene labeling consists of labeling each pixel in an image with the category of the object it belongs to. We propose a method that uses a multiscale convolutional network trained from raw pixels to extract dense feature vectors that encode regions of multiple sizes centered on each pixel. The method alleviates the need for engineered features, and produces a powerful representation that captures texture, shape, and contextual information. We report results using multiple postprocessing methods to produce the final labeling. Among those, we propose a technique to automatically retrieve, from a pool of segmentation components, an optimal set of components that best explain the scene; these components are arbitrary, for example, they can be taken from a segmentation tree or from any family of oversegmentations. The system yields record accuracies on the SIFT Flow dataset (33 classes) and the Barcelona dataset (170 classes) and near-record accuracy on Stanford background dataset (eight classes), while being an order of magnitude faster than competing approaches, producing a 320×240 image labeling in less than a second, including feature extraction. Convolutional neural networks (ConvNets) have achieved excellent recognition performance in various visual recognition tasks. A large labeled training set is one of the most important factors for its success. However, it is difficult to collect sufficient training images with precise labels in some domains, such as apparent age estimation, head pose estimation, multilabel classification, and semantic segmentation. Fortunately, there is ambiguous information among labels, which makes these tasks different from traditional classification. Based on this observation, we convert the label of each image into a discrete label distribution, and learn the label distribution by minimizing a Kullback–Leibler divergence between the predicted and ground-truth label distributions using deep ConvNets. The proposed deep label distribution learning (DLDL) method effectively utilizes the label ambiguity in both feature learning and classifier learning, which help prevent the network from overfitting even when the training set is small. Experimental results show that the proposed approach produces significantly better results than the state-of-the-art methods for age estimation and head pose estimation. At the same time, it also improves recognition performance for multi-label classification and semantic segmentation tasks. This paper proposes a novel deep architecture to address multi-label image recognition, a fundamental and practical task towards general visual understanding. Current solutions for this task usually rely on an extra step of extracting hypothesis regions (i.e., region proposals), resulting in redundant computation and sub-optimal performance. In this work, we achieve the interpretable and contextualized multi-label image classification by developing a recurrent memorized-attention module. This module consists of two alternately performed components: i) a spatial transformer layer to locate attentional regions from the convolutional feature maps in a region-proposal-free way and ii) an LSTM (Long-Short Term Memory) sub-network to sequentially predict semantic labeling scores on the located regions while capturing the global dependencies of these regions. The LSTM also output the parameters for computing the spatial transformer. On large-scale benchmarks of multi-label image classification (e.g., MS-COCO and PASCAL VOC 07), our approach demonstrates superior performances over other existing state-of-the-arts in both accuracy and efficiency. Feedforward multilayer networks trained by supervised learning have recently demonstrated state of the art performance on image labeling problems such as boundary prediction and scene parsing. As even very low error rates can limit practical usage of such systems, methods that perform closer to human accuracy remain desirable. In this work, we propose a new type of network with the following properties that address what we hypothesize to be limiting aspects of existing methods: (1) a wide' structure with thousands of features, (2) a large field of view, (3) recursive iterations that exploit statistical dependencies in label space, and (4) a parallelizable architecture that can be trained in a fraction of the time compared to benchmark multilayer convolutional networks. For the specific image labeling problem of boundary prediction, we also introduce a novel example weighting algorithm that improves segmentation accuracy. Experiments in the challenging domain of connectomic reconstruction of neural circuity from 3d electron microscopy data show that these "Deep And Wide Multiscale Recursive" (DAWMR) networks lead to new levels of image labeling performance. The highest performing architecture has twelve layers, interwoven supervised and unsupervised stages, and uses an input field of view of 157,464 voxels ( @math ) to make a prediction at each image location. We present an associated open source software package that enables the simple and flexible creation of DAWMR networks. Deep convolution neural networks (CNNs) have demonstrated advanced performance on single-label image classification, and various progress also has been made to apply CNN methods on multilabel image classification, which requires annotating objects, attributes, scene categories, etc., in a single shot. Recent state-of-the-art approaches to the multilabel image classification exploit the label dependencies in an image, at the global level, largely improving the labeling capacity. However, predicting small objects and visual concepts is still challenging due to the limited discrimination of the global visual features. In this paper, we propose a regional latent semantic dependencies model (RLSD) to address this problem. The utilized model includes a fully convolutional localization architecture to localize the regions that may contain multiple highly dependent labels. The localized regions are further sent to the recurrent neural networks to characterize the latent semantic dependencies at the regional level. Experimental results on several benchmark datasets show that our proposed model achieves the best performance compared to the state-of-the-art models, especially for predicting small objects occurring in the images. Also, we set up an upper bound model (RLSD+ft-RPN) using bounding-box coordinates during training, and the experimental results also show that our RLSD can approach the upper bound without using the bounding-box annotations, which is more realistic in the real world. Over the last years, deep convolutional neural networks (ConvNets) have transformed the field of computer vision thanks to their unparalleled capacity to learn high level semantic image features. However, in order to successfully learn those features, they usually require massive amounts of manually labeled data, which is both expensive and impractical to scale. Therefore, unsupervised semantic feature learning, i.e., learning without requiring manual annotation effort, is of crucial importance in order to successfully harvest the vast amount of visual data that are available today. In our work we propose to learn image features by training ConvNets to recognize the 2d rotation that is applied to the image that it gets as input. We demonstrate both qualitatively and quantitatively that this apparently simple task actually provides a very powerful supervisory signal for semantic feature learning. We exhaustively evaluate our method in various unsupervised feature learning benchmarks and we exhibit in all of them state-of-the-art performance. Specifically, our results on those benchmarks demonstrate dramatic improvements w.r.t. prior state-of-the-art approaches in unsupervised representation learning and thus significantly close the gap with supervised feature learning. For instance, in PASCAL VOC 2007 detection task our unsupervised pre-trained AlexNet model achieves the state-of-the-art (among unsupervised methods) mAP of 54.4 that is only 2.4 points lower from the supervised case. We get similarly striking results when we transfer our unsupervised learned features on various other tasks, such as ImageNet classification, PASCAL classification, PASCAL segmentation, and CIFAR-10 classification. The code and models of our paper will be published on: this https URL . We present an integrated framework for using Convolutional Networks for classification, localization and detection. We show how a multiscale and sliding window approach can be efficiently implemented within a ConvNet. We also introduce a novel deep learning approach to localization by learning to predict object boundaries. Bounding boxes are then accumulated rather than suppressed in order to increase detection confidence. We show that different tasks can be learned simultaneously using a single shared network. This integrated framework is the winner of the localization task of the ImageNet Large Scale Visual Recognition Challenge 2013 (ILSVRC2013) and obtained very competitive results for the detection and classifications tasks. In post-competition work, we establish a new state of the art for the detection task. Finally, we release a feature extractor from our best model called OverFeat. Over the last years, deep convolutional neural networks (ConvNets) have transformed the field of computer vision thanks to their unparalleled capacity to learn high level semantic image features. However, in order to successfully learn those features, they usually require massive amounts of manually labeled data, which is both expensive and impractical to scale. Therefore, unsupervised semantic feature learning, i.e., learning without requiring manual annotation effort, is of crucial importance in order to successfully harvest the vast amount of visual data that are available today. In our work we propose to learn image features by training ConvNets to recognize the 2d rotation that is applied to the image that it gets as input. We demonstrate both qualitatively and quantitatively that this apparently simple task actually provides a very powerful supervisory signal for semantic feature learning. We exhaustively evaluate our method in various unsupervised feature learning benchmarks and we exhibit in all of them state-of-the-art performance. Specifically, our results on those benchmarks demonstrate dramatic improvements w.r.t. prior state-of-the-art approaches in unsupervised representation learning and thus significantly close the gap with supervised feature learning. For instance, in PASCAL VOC 2007 detection task our unsupervised pre-trained AlexNet model achieves the state-of-the-art (among unsupervised methods) mAP of 54.4 that is only 2.4 points lower from the supervised case. We get similar striking results when we transfer our unsupervised learned features on various other tasks, such as ImageNet classification, PASCAL classification, PASCAL segmentation, and CIFAR-10 classification. Recently recurrent neural networks (RNNs) have demonstrated the ability to improve scene labeling through capturing long-range dependencies among image units. In this paper, we propose dense RNNs for scene labeling by exploring various long-range semantic dependencies among image units. In comparison with existing RNN based approaches, our dense RNNs are able to capture richer contextual dependencies for each image unit via dense connections between each pair of image units, which significantly enhances their discriminative power. Besides, to select relevant and meanwhile restrain irrelevant dependencies for each unit from dense connections, we introduce an attention model into dense RNNs. The attention model enables automatically assigning more importance to helpful dependencies while less weight to unconcerned dependencies. Integrating with convolutional neural networks (CNNs), our method achieves state-of-the-art performances on the PASCAL Context, MIT ADE20K and SiftFlow benchmarks. Convolutional neural networks (CNNs) have shown great performance as general feature representations for object recognition applications. However, for multi-label images that contain multiple objects from different categories, scales and locations, global CNN features are not optimal. In this paper, we incorporate local information to enhance the feature discriminative power. In particular, we first extract object proposals from each image. With each image treated as a bag and object proposals extracted from it treated as instances, we transform the multi-label recognition problem into a multi-class multi-instance learning problem. Then, in addition to extracting the typical CNN feature representation from each proposal, we propose to make use of ground-truth bounding box annotations (strong labels) to add another level of local information by using nearest-neighbor relationships of local regions to form a multi-view pipeline. The proposed multi-view multiinstance framework utilizes both weak and strong labels effectively, and more importantly it has the generalization ability to even boost the performance of unseen categories by partial strong labels from other categories. Our framework is extensively compared with state-of-the-art handcrafted feature based methods and CNN based methods on two multi-label benchmark datasets. The experimental results validate the discriminative power and the generalization ability of the proposed framework. With strong labels, our framework is able to achieve state-of-the-art results in both datasets. Abstract: We present an integrated framework for using Convolutional Networks for classification, localization and detection. We show how a multiscale and sliding window approach can be efficiently implemented within a ConvNet. We also introduce a novel deep learning approach to localization by learning to predict object boundaries. Bounding boxes are then accumulated rather than suppressed in order to increase detection confidence. We show that different tasks can be learned simultaneously using a single shared network. This integrated framework is the winner of the localization task of the ImageNet Large Scale Visual Recognition Challenge 2013 (ILSVRC2013) and obtained very competitive results for the detection and classifications tasks. In post-competition work, we establish a new state of the art for the detection task. Finally, we release a feature extractor from our best model called OverFeat. The goal of the scene labeling task is to assign a class label to each pixel in an image. To ensure a good visual coherence and a high class accuracy, it is essential for a model to capture long range (pixel) label dependencies in images. In a feed-forward architecture, this can be achieved simply by considering a sufficiently large input context patch, around each pixel to be labeled. We propose an approach that consists of a recurrent convolutional neural network which allows us to consider a large input context while limiting the capacity of the model. Contrary to most standard approaches, our method does not rely on any segmentation technique nor any task-specific features. The system is trained in an end-to-end manner over raw pixels, and models complex spatial dependencies with low inference cost. As the context size increases with the built-in recurrence, the system identifies and corrects its own errors. Our approach yields state-of-the-art performance on both the Stanford Background Dataset and the SIFT Flow Dataset, while remaining very fast at test time. Semantically labeling every pixel in a video is a very challenging task as video is an information-intensive media with complex spatio-temporal dependence. We present in this paper a novel deep convolutional network architecture, called deep spatio-temporal fully convolutional networks (DST-FCN), which leverages both spatial and temporal dependencies among pixels and voxels by training them in an end-to-end manner. Specifically, we introduce a two-stream network by learning the deep spatio-temporal dependence, in which a 2D FCN followed by the convolutional long short-term memory (ConvLSTM) is employed on the pixel level and a 3-D FCN is exploited on the voxel level. Our model differs from conventional FCN in that it not only extends FCN by adding ConvLSTM on the pixel level for exploring long-term dependence, but also proposes 3-D FCN to enable voxel level prediction. On two benchmarks of A2D and CamVid, our DST-FCN achieves superior results to state-of-the-art techniques. More remarkably, we obtain to-date the best reported results: 45.0 per-label accuracy on A2D and 68.8 mean IoU on CamVid.