This repository includes a sample Google Cloud notebook that shows how to train a 3D classification model on Imaging Data Commons (IDC) buckets. Here are what I have covered in this notebook:
- How to connect to IDC buckets.
- How to retrieve the DICOMs metadata from IDC using BigQuery commands.
- How to download DICOMs from IDC.
- How to change DICOMs to NIFTIs in the clouds.
- How to pre-process data and train a 3D model on it using MONAI and Pytorch.
This notebook has been developed in the Radiology Informatics Laboratory at Mayo Clinic (MN), USA.
In case of any issues, please contact me via this email address: rouzrokh.pouria@mayo.edu
Hope you find it helpful!
Pouria