infer_covidnet

infer_covidnet

About

1.2.0
AGPL-3.0

A tailored Deep Convolutional Neural Network Design for detection of COVID-19 cases from chest radiography images.

Task: Classification
covid-19
coronavirus
x-ray
radiography
chest
lung
dnn

The COVID-19 pandemic continues to have a devastating effect on the health and well-being of the global population. A critical step in the fight against COVID-19 is effective screening of infected patients, with one of the key screening approaches being radiological imaging using chest radiography. It was found in early studies that patients present abnormalities in chest radiography images that are characteristic of those infected with COVID-19. Motivated by this, a number of artificial intelligence (AI) systems based on deep learning have been proposed and results have been shown to be quite promising in terms of accuracy in detecting patients infected with COVID-19 using chest radiography images. However, to the best of the authors’ knowledge, these developed AI systems have been closed source and unavailable to the research community for deeper understanding and extension, and unavailable for public access and use. Therefore, in this study we introduce COVID-Net, a deep convolutional neural network design tailored for the detection of COVID-19 cases from chest radiography images that is open source and available to the general public. We also describe the chest radiography dataset leveraged to train COVID-Net, which we will refer to as COVIDx and is comprised of 16,756 chest radiography images across 13,645 patient cases from two open access data repositories. Furthermore, we investigate how COVID-Net makes predictions using an explainability method in an attempt to gain deeper insights into critical factors associated with COVID cases, which can aid clinicians in improved screening. By no means a production-ready solution, the hope is that the open access COVID-Net, along with the description on constructing the open source COVIDx dataset, will be leveraged and build upon by both researchers and citizen data scientists alike to accelerate the development of highly accurate yet practical deep learning solutions for detecting COVID-19 cases and accelerate treatment of those who need it the most.

🚀 Use with Ikomia API

1. Install Ikomia API

We strongly recommend using a virtual environment. If you're not sure where to start, we offer a tutorial here.

pip install ikomia

2. Create your workflow

[Change the sample image URL to fit algorithm purpose]

import ikomia
from ikomia.dataprocess.workflow import Workflow

# Init your workflow
wf = Workflow()

# Add algorithm
algo = wf.add_task(name="infer_covidnet", auto_connect=True)

# Run on your image  
wf.run_on(url="example_image.png")

☀️ Use with Ikomia Studio

Ikomia Studio offers a friendly UI with the same features as the API.

  • If you haven't started using Ikomia Studio yet, download and install it from this page.

  • For additional guidance on getting started with Ikomia Studio, check out this blog post.

📝 Set algorithm parameters

[Explain each algorithm parameters]

[Change the sample image URL to fit algorithm purpose]

import ikomia
from ikomia.dataprocess.workflow import Workflow

# Init your workflow
wf = Workflow()

# Add algorithm
algo = wf.add_task(name="infer_covidnet", auto_connect=True)

algo.set_parameters({
    "param1": "value1",
    "param2": "value2",
    ...
})

# Run on your image  
wf.run_on(url="example_image.png")

🔍 Explore algorithm outputs

Every algorithm produces specific outputs, yet they can be explored them the same way using the Ikomia API. For a more in-depth understanding of managing algorithm outputs, please refer to the documentation.

import ikomia
from ikomia.dataprocess.workflow import Workflow

# Init your workflow
wf = Workflow()

# Add algorithm
algo = wf.add_task(name="infer_covidnet", auto_connect=True)

# Run on your image  
wf.run_on(url="example_image.png")

# Iterate over outputs
for output in algo.get_outputs()
    # Print information
    print(output)
    # Export it to JSON
    output.to_json()

Developer

  • Ikomia
    Ikomia

License

GNU Affero General Public License v3.0
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