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ScribFormer: Transformer Makes CNN Work Better for Scribble-based Medical Image Segmentation
Feb 03, 2024
Most recent scribble-supervised segmentation methods commonly adopt a CNN framework with an encoder-decoder architecture. Despite its multiple benefits, this framework generally can only capture small-range feature dependency for the convolutional layer with the local receptive field, which makes it difficult to learn global shape information from the limited information provided by scribble annotations. To address this issue, this paper proposes a new CNN-Transformer hybrid solution for scribble-supervised medical image segmentation called ScribFormer. The proposed ScribFormer model has a triple-branch structure, i.e., the hybrid of a CNN branch, a Transformer branch, and an attention-guided class activation map (ACAM) branch. Specifically, the CNN branch collaborates with the Transformer branch to fuse the local features learned from CNN with the global representations obtained from Transformer, which can effectively overcome limitations of existing scribble-supervised segmentation methods. Furthermore, the ACAM branch assists in unifying the shallow convolution features and the deep convolution features to improve model's performance further. Extensive experiments on two public datasets and one private dataset show that our ScribFormer has superior performance over the state-of-the-art scribble-supervised segmentation methods, and achieves even better results than the fully-supervised segmentation methods. The code is released at https://github.com/HUANGLIZI/ScribFormer.
ScribbleVC: Scribble-supervised Medical Image Segmentation with Vision-Class Embedding
Jul 30, 2023
Medical image segmentation plays a critical role in clinical decision-making, treatment planning, and disease monitoring. However, accurate segmentation of medical images is challenging due to several factors, such as the lack of high-quality annotation, imaging noise, and anatomical differences across patients. In addition, there is still a considerable gap in performance between the existing label-efficient methods and fully-supervised methods. To address the above challenges, we propose ScribbleVC, a novel framework for scribble-supervised medical image segmentation that leverages vision and class embeddings via the multimodal information enhancement mechanism. In addition, ScribbleVC uniformly utilizes the CNN features and Transformer features to achieve better visual feature extraction. The proposed method combines a scribble-based approach with a segmentation network and a class-embedding module to produce accurate segmentation masks. We evaluate ScribbleVC on three benchmark datasets and compare it with state-of-the-art methods. The experimental results demonstrate that our method outperforms existing approaches in terms of accuracy, robustness, and efficiency. The datasets and code are released on GitHub.
Coarse-to-Fine Covid-19 Segmentation via Vision-Language Alignment
Mar 01, 2023
Segmentation of COVID-19 lesions can assist physicians in better diagnosis and treatment of COVID-19. However, there are few relevant studies due to the lack of detailed information and high-quality annotation in the COVID-19 dataset. To solve the above problem, we propose C2FVL, a Coarse-to-Fine segmentation framework via Vision-Language alignment to merge text information containing the number of lesions and specific locations of image information. The introduction of text information allows the network to achieve better prediction results on challenging datasets. We conduct extensive experiments on two COVID-19 datasets including chest X-ray and CT, and the results demonstrate that our proposed method outperforms other state-of-the-art segmentation methods.
TFCNs: A CNN-Transformer Hybrid Network for Medical Image Segmentation
Jul 07, 2022
Medical image segmentation is one of the most fundamental tasks concerning medical information analysis. Various solutions have been proposed so far, including many deep learning-based techniques, such as U-Net, FC-DenseNet, etc. However, high-precision medical image segmentation remains a highly challenging task due to the existence of inherent magnification and distortion in medical images as well as the presence of lesions with similar density to normal tissues. In this paper, we propose TFCNs (Transformers for Fully Convolutional denseNets) to tackle the problem by introducing ResLinear-Transformer (RL-Transformer) and Convolutional Linear Attention Block (CLAB) to FC-DenseNet. TFCNs is not only able to utilize more latent information from the CT images for feature extraction, but also can capture and disseminate semantic features and filter non-semantic features more effectively through the CLAB module. Our experimental results show that TFCNs can achieve state-of-the-art performance with dice scores of 83.72\% on the Synapse dataset. In addition, we evaluate the robustness of TFCNs for lesion area effects on the COVID-19 public datasets. The Python code will be made publicly available on https://github.com/HUANGLIZI/TFCNs.
LViT: Language meets Vision Transformer in Medical Image Segmentation
Jun 29, 2022
Deep learning has been widely used in medical image segmentation and other aspects. However, the performance of existing medical image segmentation models has been limited by the challenge of obtaining sufficient number of high-quality data with the high cost of data annotation. To overcome the limitation, we propose a new vision-language medical image segmentation model LViT (Language meets Vision Transformer). In our model, medical text annotation is introduced to compensate for the quality deficiency in image data. In addition, the text information can guide the generation of pseudo labels to a certain extent and further guarantee the quality of pseudo labels in semi-supervised learning. We also propose the Exponential Pseudo label Iteration mechanism (EPI) to help extend the semi-supervised version of LViT and the Pixel-Level Attention Module (PLAM) to preserve local features of images. In our model, LV (Language-Vision) loss is designed to supervise the training of unlabeled images using text information directly. To validate the performance of LViT, we construct multimodal medical segmentation datasets (image + text) containing pathological images, X-rays,etc. Experimental results show that our proposed LViT has better segmentation performance in both fully and semi-supervised conditions. Code and datasets are available at https://github.com/HUANGLIZI/LViT.
A New ECOC Algorithm for Multiclass Microarray Data Classification
Jun 22, 2018
The classification of multi-class microarray datasets is a hard task because of the small samples size in each class and the heavy overlaps among classes. To effectively solve these problems, we propose novel Error Correcting Output Code (ECOC) algorithm by Enhance Class Separability related Data Complexity measures during encoding process, named as ECOCECS. In this algorithm, two nearest neighbor related DC measures are deployed to extract the intrinsic overlapping information from microarray data. Our ECOC algorithm aims to search an optimal class split scheme by minimizing these measures. The class splitting process ends when each class is separated from others, and then the class assignment scheme is mapped as a coding matrix. Experiments are carried out on five microarray datasets, and results demonstrate the effectiveness and robustness of our method in comparison with six state-of-art ECOC methods. In short, our work confirm the probability of applying DC to ECOC framework.