Preprint Article Version 3 Preserved in Portico This version is not peer-reviewed

A Fully Automated Deep Learning-based Network For Detecting COVID-19 from a New And Large Lung CT Scan Dataset

Version 1 : Received: 2 June 2020 / Approved: 4 June 2020 / Online: 4 June 2020 (08:29:03 CEST)
Version 2 : Received: 4 July 2020 / Approved: 5 July 2020 / Online: 5 July 2020 (05:31:44 CEST)
Version 3 : Received: 1 September 2020 / Approved: 5 September 2020 / Online: 5 September 2020 (03:36:20 CEST)

A peer-reviewed article of this Preprint also exists.

Mohammad Rahimzadeh, Abolfazl Attar, Seyed Mohammad Sakhaei, A fully automated deep learning-based network for detecting COVID-19 from a new and large lung CT scan dataset, Biomedical Signal Processing and Control, Volume 68, 2021, 102588, ISSN 1746-8094, https://doi.org/10.1016/j.bspc.2021.102588. (https://www.sciencedirect.com/science/article/pii/S1746809421001853) Abstract: This paper aims to propose a high-speed and accurate fully-automated method to detect COVID-19 from the patient's chest CT scan images. We introduce a new dataset that contains 48,260 CT scan images from 282 normal persons and 15,589 images from 95 patients with COVID-19 infections. At the first stage, this system runs our proposed image processing algorithm that analyzes the view of the lung to discard those CT images that inside the lung is not properly visible in them. This action helps to reduce the processing time and false detections. At the next stage, we introduce a novel architecture for improving the classification accuracy of convolutional networks on images containing small important objects. Our architecture applies a new feature pyramid network designed for classification problems to the ResNet50V2 model so the model becomes able to investigate different resolutions of the image and do not lose the data of small objects. As the infections of COVID-19 exist in various scales, especially many of them are tiny, using our method helps to increase the classification performance remarkably. After running these two phases, the system determines the condition of the patient using a selected threshold. We are the first to evaluate our system in two different ways on Xception, ResNet50V2, and our model. In the single image classification stage, our model achieved 98.49% accuracy on more than 7996 test images. At the patient condition identification phase, the system correctly identified almost 234 of 245 patients with high speed. Our dataset is accessible at https://github.com/mr7495/COVID-CTset. Keywords: Deep learning; Convolutional neural networks; COVID-19; Coronavirus; Radiology; CT scan; Medical image analysis; Automatic medical diagnosis; Lung CT scan dataset Mohammad Rahimzadeh, Abolfazl Attar, Seyed Mohammad Sakhaei, A fully automated deep learning-based network for detecting COVID-19 from a new and large lung CT scan dataset, Biomedical Signal Processing and Control, Volume 68, 2021, 102588, ISSN 1746-8094, https://doi.org/10.1016/j.bspc.2021.102588. (https://www.sciencedirect.com/science/article/pii/S1746809421001853) Abstract: This paper aims to propose a high-speed and accurate fully-automated method to detect COVID-19 from the patient's chest CT scan images. We introduce a new dataset that contains 48,260 CT scan images from 282 normal persons and 15,589 images from 95 patients with COVID-19 infections. At the first stage, this system runs our proposed image processing algorithm that analyzes the view of the lung to discard those CT images that inside the lung is not properly visible in them. This action helps to reduce the processing time and false detections. At the next stage, we introduce a novel architecture for improving the classification accuracy of convolutional networks on images containing small important objects. Our architecture applies a new feature pyramid network designed for classification problems to the ResNet50V2 model so the model becomes able to investigate different resolutions of the image and do not lose the data of small objects. As the infections of COVID-19 exist in various scales, especially many of them are tiny, using our method helps to increase the classification performance remarkably. After running these two phases, the system determines the condition of the patient using a selected threshold. We are the first to evaluate our system in two different ways on Xception, ResNet50V2, and our model. In the single image classification stage, our model achieved 98.49% accuracy on more than 7996 test images. At the patient condition identification phase, the system correctly identified almost 234 of 245 patients with high speed. Our dataset is accessible at https://github.com/mr7495/COVID-CTset. Keywords: Deep learning; Convolutional neural networks; COVID-19; Coronavirus; Radiology; CT scan; Medical image analysis; Automatic medical diagnosis; Lung CT scan dataset

Journal reference: Biomedical Signal Processing and Control 2021, 68, 102588
DOI: 10.1016/j.bspc.2021.102588

Abstract

COVID-19 is a severe global problem, and AI can play a significant role in preventing losses by monitoring and detecting infected persons in early-stage. This paper aims to propose a high-speed and accurate fully-automated method to detect COVID-19 from the patient's CT scan images. We introduce a new dataset that contains 48260 CT scan images from 282 normal persons and 15589 images from 95 patients with COVID-19 infections. At the first stage, this system runs our proposed image processing algorithm to discard those CT images that inside the lung is not properly visible in them. This action helps to reduce the processing time and false detections. At the next stage, we introduce a novel method for increasing the classification accuracy of convolutional networks. We implemented our method using the ResNet50V2 network and a modified feature pyramid network alongside our designed architecture for classifying the selected CT images into COVID-19 or normal with higher accuracy than other models. After running these two phases, the system determines the condition of the patient using a selected threshold. We are the first to evaluate our system in two different ways. In the single image classification stage, our model achieved 98.49% accuracy on more than 7996 test images. At the patient identification phase, the system correctly identified almost 234 of 245 patients with high speed. We also investigate the classified images with the Grad-CAM algorithm to indicate the area of infections in images and evaluate our model classification correctness.

Supplementary and Associated Material

https://github.com/mr7495/COVID-CTset: Large COVID-19 CT Scans dataset containing 63849 images from 377 patients
https://github.com/mr7495/COVID-CT-Code: Fully automated code for Covid-19 detection from CT scans

Keywords

Deep learning; Convolutional Neural Network; Coronavirus; COVID-19; radiology; CT scan; Medical image analysis; Automatic medical diagnosis; lung CT scan dataset

Subject

MATHEMATICS & COMPUTER SCIENCE, Artificial Intelligence & Robotics

Comments (1)

Comment 1
Received: 5 September 2020
Commenter: Mohammad Rahimzadeh
Commenter's Conflict of Interests: Author
Comment: Dear Editor,
In this version, we have added some tables and figures and also modified
the material and methods section to better explain our obtained results.

Regards
Mohammad Rahimzadeh
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