Towards Data-Efficient Learning: A Benchmark for COVID-19 CT Lung and Infection Segmentation

• URL: http://arxiv.org/abs/2004.12537v2
• Date: Thu, 3 Dec 2020 11:21:07 GMT
• Title: Towards Data-Efficient Learning: A Benchmark for COVID-19 CT Lung and Infection Segmentation
• Authors: Jun Ma, Yixin Wang, Xingle An, Cheng Ge, Ziqi Yu, Jianan Chen, Qiongjie Zhu, Guoqiang Dong, Jian He, Zhiqiang He, Yuntao Zhu, Ziwei Nie, Xiaoping Yang
• Abstract summary: We build three benchmarks for lung and infection segmentation based on 70 annotated COVID-19 cases. For a fair comparison among different segmentation methods, we also provide standard training, validation and testing splits, evaluation metrics and, the corresponding code. We achieve average Dice Similarity Coefficient (DSC) scores of 97.3%, 97.7%, and 67.3% and average Normalized Surface Dice (NSD) scores of 90.6%, 91.4%, and 70.0% for left lung, right lung, and infection, respectively.
• Score: 28.437504408773147
• License: http://creativecommons.org/licenses/by-nc-sa/4.0/
• Abstract: Purpose: Accurate segmentation of lung and infection in COVID-19 CT scans plays an important role in the quantitative management of patients. Most of the existing studies are based on large and private annotated datasets that are impractical to obtain from a single institution, especially when radiologists are busy fighting the coronavirus disease. Furthermore, it is hard to compare current COVID-19 CT segmentation methods as they are developed on different datasets, trained in different settings, and evaluated with different metrics. Methods: To promote the development of data-efficient deep learning methods, in this paper, we built three benchmarks for lung and infection segmentation based on 70 annotated COVID-19 cases, which contain current active research areas, e.g., few-shot learning, domain generalization, and knowledge transfer. For a fair comparison among different segmentation methods, we also provide standard training, validation and testing splits, evaluation metrics and, the corresponding code. Results: Based on the state-of-the-art network, we provide more than 40 pre-trained baseline models, which not only serve as out-of-the-box segmentation tools but also save computational time for researchers who are interested in COVID-19 lung and infection segmentation. We achieve average Dice Similarity Coefficient (DSC) scores of 97.3\%, 97.7\%, and 67.3\% and average Normalized Surface Dice (NSD) scores of 90.6\%, 91.4\%, and 70.0\% for left lung, right lung, and infection, respectively. Conclusions: To the best of our knowledge, this work presents the first data-efficient learning benchmark for medical image segmentation and the largest number of pre-trained models up to now. All these resources are publicly available, and our work lays the foundation for promoting the development of deep learning methods for efficient COVID-19 CT segmentation with limited data.

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