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HarDNet-MSEG: A Simple Encoder-Decoder Polyp Segmentation Neural Network that Achieves over 0.9 Mean Dice and 86 FPS
TL;DR: HarDNet-MSEG as mentioned in this paper proposes a new convolution neural network for polyp segmentation, which consists of a backbone and a decoder, which achieves SOTA in both accuracy and inference speed on five popular datasets.
Abstract: We propose a new convolution neural network called HarDNet-MSEG for polyp segmentation. It achieves SOTA in both accuracy and inference speed on five popular datasets. For Kvasir-SEG, HarDNet-MSEG delivers 0.904 mean Dice running at 86.7 FPS on a GeForce RTX 2080 Ti GPU. It consists of a backbone and a decoder. The backbone is a low memory traffic CNN called HarDNet68, which has been successfully applied to various CV tasks including image classification, object detection, multi-object tracking and semantic segmentation, etc. The decoder part is inspired by the Cascaded Partial Decoder, known for fast and accurate salient object detection. We have evaluated HarDNet-MSEG using those five popular datasets. The code and all experiment details are available at Github. this https URL
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27 Sep 2021
TL;DR: TransFuse as discussed by the authors combines Transformers and CNNs in a parallel style, where both global dependency and low-level spatial details can be efficiently captured in a much shallower manner.
Abstract: Medical image segmentation - the prerequisite of numerous clinical needs - has been significantly prospered by recent advances in convolutional neural networks (CNNs). However, it exhibits general limitations on modeling explicit long-range relation, and existing cures, resorting to building deep encoders along with aggressive downsampling operations, leads to redundant deepened networks and loss of localized details. Hence, the segmentation task awaits a better solution to improve the efficiency of modeling global contexts while maintaining a strong grasp of low-level details. In this paper, we propose a novel parallel-in-branch architecture, TransFuse, to address this challenge. TransFuse combines Transformers and CNNs in a parallel style, where both global dependency and low-level spatial details can be efficiently captured in a much shallower manner. Besides, a novel fusion technique - BiFusion module is created to efficiently fuse the multi-level features from both branches. Extensive experiments demonstrate that TransFuse achieves the newest state-of-the-art results on both 2D and 3D medical image sets including polyp, skin lesion, hip, and prostate segmentation, with significant parameter decrease and inference speed improvement.
365 citations
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TL;DR: Wang et al. as discussed by the authors proposed a dual-scale encoder subnetworks based on Swin Transformer to extract the coarse and fine-grained feature representations of different semantic scales.
Abstract: Automatic medical image segmentation has made great progress benefit from the development of deep learning. However, most existing methods are based on convolutional neural networks (CNNs), which fail to build long-range dependencies and global context connections due to the limitation of receptive field in convolution operation. Inspired by the success of Transformer in modeling the long-range contextual information, some researchers have expended considerable efforts in designing the robust variants of Transformer-based U-Net. Moreover, the patch division used in vision transformers usually ignores the pixel-level intrinsic structural features inside each patch. To alleviate these problems, we propose a novel deep medical image segmentation framework called Dual Swin Transformer U-Net (DS-TransUNet), which might be the first attempt to concurrently incorporate the advantages of hierarchical Swin Transformer into both encoder and decoder of the standard U-shaped architecture to enhance the semantic segmentation quality of varying medical images. Unlike many prior Transformer-based solutions, the proposed DS-TransUNet first adopts dual-scale encoder subnetworks based on Swin Transformer to extract the coarse and fine-grained feature representations of different semantic scales. As the core component for our DS-TransUNet, a well-designed Transformer Interactive Fusion (TIF) module is proposed to effectively establish global dependencies between features of different scales through the self-attention mechanism. Furthermore, we also introduce the Swin Transformer block into decoder to further explore the long-range contextual information during the up-sampling process. Extensive experiments across four typical tasks for medical image segmentation demonstrate the effectiveness of DS-TransUNet, and show that our approach significantly outperforms the state-of-the-art methods.
59 citations
TL;DR: Focus U-Net as mentioned in this paper is a dual attention-gated deep neural network, which combines efficient spatial and channel-based attention into a single Focus Gate module to encourage selective learning of polyp features.
46 citations
TL;DR: In this paper, the authors propose to segment a single roughly elliptically distributed object by training a neural network on polar transformations of the original dataset, such that the polar origin for the transformation is the center point of the object.
Abstract: A key step in medical image-based diagnosis is image segmentation. A common use case for medical image segmentation is the identification of single structures of an elliptical shape. Most organs like the heart and kidneys fall into this category, as well as skin lesions, polyps, and other types of abnormalities. Neural networks have dramatically improved medical image segmentation results, but still require large amounts of training data and long training times to converge. In this paper, we propose a general way to improve neural network segmentation performance and data efficiency on medical imaging segmentation tasks where the goal is to segment a single roughly elliptically distributed object. We propose training a neural network on polar transformations of the original dataset, such that the polar origin for the transformation is the center point of the object. This results in a reduction of dimensionality as well as a separation of segmentation and localization tasks, allowing the network to more easily converge. Additionally, we propose two different approaches to obtaining an optimal polar origin: (1) estimation via a segmentation trained on non-polar images and (2) estimation via a model trained to predict the optimal origin. We evaluate our method on the tasks of liver, polyp, skin lesion, and epicardial adipose tissue segmentation. We show that our method produces state-of-the-art results for lesion, liver, and polyp segmentation and performs better than most common neural network architectures for biomedical image segmentation. Additionally, when used as a pre-processing step, our method generally improves data efficiency across datasets and neural network architectures.
22 citations
27 Sep 2021
TL;DR: Cathy et al. as discussed by the authors proposed a hard region enhancement network (HRENet) based on an encoder-decoder framework to explore and intensify the features from the lower-level encoder with explicit attention on hard regions.
Abstract: Automatic polyp segmentation in the screening system is of great practical significance for the diagnosis and treatment of colorectal cancer. However, accurate segmentation in the colonoscopy images still remains a challenge. In this paper, we propose a hard region enhancement network (HRENet) based on an encoder-decoder framework. Specifically, we design an informative context enhancement (ICE) module to explore and intensify the features from the lower-level encoder with explicit attention on hard regions. We also develop an adaptive feature aggregation (AFA) module to select and aggregate the features from multiple semantic levels. In addition, we train the model with a proposed edge and structure consistency aware loss (ESCLoss) to further boost the performance. Extensive experiments on three public datasets show that our proposed algorithm outperforms the state-of-the-art approaches in terms of both learning ability and generalization capability. In particular, our HRENet achieves a mIoU of 92.11% and a Dice of 92.56% on Kvasir-SEG dataset. And the model trained with Kvasir-SEG and CVC-Clinic DB retains a high inference performance on the unseen dataset CVC-Colon DB with a mIoU of 88.42% and a Dice of 85.26%. The code is available at: https://github.com/CathySH/HRENet.
19 citations
References
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27 Jun 2016
TL;DR: In this article, the authors proposed a residual learning framework to ease the training of networks that are substantially deeper than those used previously, which won the 1st place on the ILSVRC 2015 classification task.
Abstract: Deeper neural networks are more difficult to train. We present a residual learning framework to ease the training of networks that are substantially deeper than those used previously. We explicitly reformulate the layers as learning residual functions with reference to the layer inputs, instead of learning unreferenced functions. We provide comprehensive empirical evidence showing that these residual networks are easier to optimize, and can gain accuracy from considerably increased depth. On the ImageNet dataset we evaluate residual nets with a depth of up to 152 layers—8× deeper than VGG nets [40] but still having lower complexity. An ensemble of these residual nets achieves 3.57% error on the ImageNet test set. This result won the 1st place on the ILSVRC 2015 classification task. We also present analysis on CIFAR-10 with 100 and 1000 layers. The depth of representations is of central importance for many visual recognition tasks. Solely due to our extremely deep representations, we obtain a 28% relative improvement on the COCO object detection dataset. Deep residual nets are foundations of our submissions to ILSVRC & COCO 2015 competitions1, where we also won the 1st places on the tasks of ImageNet detection, ImageNet localization, COCO detection, and COCO segmentation.
123,388 citations
20 Jun 2009
TL;DR: A new database called “ImageNet” is introduced, a large-scale ontology of images built upon the backbone of the WordNet structure, much larger in scale and diversity and much more accurate than the current image datasets.
Abstract: The explosion of image data on the Internet has the potential to foster more sophisticated and robust models and algorithms to index, retrieve, organize and interact with images and multimedia data. But exactly how such data can be harnessed and organized remains a critical problem. We introduce here a new database called “ImageNet”, a large-scale ontology of images built upon the backbone of the WordNet structure. ImageNet aims to populate the majority of the 80,000 synsets of WordNet with an average of 500-1000 clean and full resolution images. This will result in tens of millions of annotated images organized by the semantic hierarchy of WordNet. This paper offers a detailed analysis of ImageNet in its current state: 12 subtrees with 5247 synsets and 3.2 million images in total. We show that ImageNet is much larger in scale and diversity and much more accurate than the current image datasets. Constructing such a large-scale database is a challenging task. We describe the data collection scheme with Amazon Mechanical Turk. Lastly, we illustrate the usefulness of ImageNet through three simple applications in object recognition, image classification and automatic object clustering. We hope that the scale, accuracy, diversity and hierarchical structure of ImageNet can offer unparalleled opportunities to researchers in the computer vision community and beyond.
49,639 citations
05 Oct 2015
TL;DR: Neber et al. as discussed by the authors proposed a network and training strategy that relies on the strong use of data augmentation to use the available annotated samples more efficiently, which can be trained end-to-end from very few images and outperforms the prior best method (a sliding-window convolutional network) on the ISBI challenge for segmentation of neuronal structures in electron microscopic stacks.
Abstract: There is large consent that successful training of deep networks requires many thousand annotated training samples. In this paper, we present a network and training strategy that relies on the strong use of data augmentation to use the available annotated samples more efficiently. The architecture consists of a contracting path to capture context and a symmetric expanding path that enables precise localization. We show that such a network can be trained end-to-end from very few images and outperforms the prior best method (a sliding-window convolutional network) on the ISBI challenge for segmentation of neuronal structures in electron microscopic stacks. Using the same network trained on transmitted light microscopy images (phase contrast and DIC) we won the ISBI cell tracking challenge 2015 in these categories by a large margin. Moreover, the network is fast. Segmentation of a 512x512 image takes less than a second on a recent GPU. The full implementation (based on Caffe) and the trained networks are available at http://lmb.informatik.uni-freiburg.de/people/ronneber/u-net .
49,590 citations
07 Jun 2015
TL;DR: The key insight is to build “fully convolutional” networks that take input of arbitrary size and produce correspondingly-sized output with efficient inference and learning.
Abstract: Convolutional networks are powerful visual models that yield hierarchies of features. We show that convolutional networks by themselves, trained end-to-end, pixels-to-pixels, exceed the state-of-the-art in semantic segmentation. Our key insight is to build “fully convolutional” networks that take input of arbitrary size and produce correspondingly-sized output with efficient inference and learning. We define and detail the space of fully convolutional networks, explain their application to spatially dense prediction tasks, and draw connections to prior models. We adapt contemporary classification networks (AlexNet [20], the VGG net [31], and GoogLeNet [32]) into fully convolutional networks and transfer their learned representations by fine-tuning [3] to the segmentation task. We then define a skip architecture that combines semantic information from a deep, coarse layer with appearance information from a shallow, fine layer to produce accurate and detailed segmentations. Our fully convolutional network achieves state-of-the-art segmentation of PASCAL VOC (20% relative improvement to 62.2% mean IU on 2012), NYUDv2, and SIFT Flow, while inference takes less than one fifth of a second for a typical image.
28,225 citations
21 Jul 2017
TL;DR: DenseNet as mentioned in this paper proposes to connect each layer to every other layer in a feed-forward fashion, which can alleviate the vanishing gradient problem, strengthen feature propagation, encourage feature reuse, and substantially reduce the number of parameters.
Abstract: Recent work has shown that convolutional networks can be substantially deeper, more accurate, and efficient to train if they contain shorter connections between layers close to the input and those close to the output. In this paper, we embrace this observation and introduce the Dense Convolutional Network (DenseNet), which connects each layer to every other layer in a feed-forward fashion. Whereas traditional convolutional networks with L layers have L connections—one between each layer and its subsequent layer—our network has L(L+1)/2 direct connections. For each layer, the feature-maps of all preceding layers are used as inputs, and its own feature-maps are used as inputs into all subsequent layers. DenseNets have several compelling advantages: they alleviate the vanishing-gradient problem, strengthen feature propagation, encourage feature reuse, and substantially reduce the number of parameters. We evaluate our proposed architecture on four highly competitive object recognition benchmark tasks (CIFAR-10, CIFAR-100, SVHN, and ImageNet). DenseNets obtain significant improvements over the state-of-the-art on most of them, whilst requiring less memory and computation to achieve high performance. Code and pre-trained models are available at https://github.com/liuzhuang13/DenseNet.
27,821 citations