Medical Images Visualization With Streamlit

In this small project, I will show you how you can use Streamlit and VTK to create a simple 3D visualizer that allows you to upload and visualize NIFTI files.

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Packages

• pip install streamlit
• pip install streamlit-lottie
• pip install vtk
• pip install ipywidgets
• pip install itkwidgets
• pip install requests
• pip install glob2
• pip install pytest-shutil

Run locally

If you don't know how to host the application online, then you can host it and run it locally. These are the steps:

• Clone the repository:

git clone https://github.com/amine0110/medical-visualization-with-streamlit

• Install the Packages discussed above.
• Run the command:

streamlit run .\main.py

Visualization only

If you are looking only to visualize the NIFTI files without having all the other options, then this is the part that you need to focus on:

path_to_file = glob(f'{temp_data_directory}/*.nii.gz')
if path_to_file:
    with st.container():
        reader = vtk.vtkNIFTIImageReader()
        reader.SetFileName(path_to_file[0])
        reader.Update()

        view_width = 1800
        view_height = 1600

          snippet = embed.embed_snippet(views=view(reader.GetOutput()))
          html = embed.html_template.format(title="", snippet=snippet)
          components.html(html, width=view_width, height=view_height)

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