A NIfTI (nii.gz) 3D Visualizer using VTK and Qt5
Run with Python
- Create a virtual environment. Mac can use virtualenv or conda. Windows must use conda.
- Install the dependencies (PyQt5, vtk, and sip)
pip install PyQt5 vtk - Start the program
python ./visualizer/brain_tumor_3d.py -i "./sample_data/10labels_example/T1CE.nii.gz" -m "./sample_data/10labels_example/mask.nii.gz"
Generate PyInstaller Binaries
Note: Must modify the paths in .spec file to match your project directory
- Mac:
pyinstaller Theia_Mac.spec - Windows:
pyinstaller Theia_Windows.spec
Test
python -m pytest
Acknowledgements
[1] S.Bakas et al, "Advancing The Cancer Genome Atlas glioma MRI collections with expert segmentation labels and radiomic features", Nature Scientific Data, 4:170117 (2017) DOI: 10.1038/sdata.2017.117
[2] B.Menze et al, "The Multimodal Brain Tumor Image Segmentation Benchmark (BRATS)", IEEE Transactions on Medical Imaging 34(10), 1993-2024 (2015) DOI: 10.1109/TMI.2014.2377694