CT to MR Spinal Translation

What is in this repo? Preprocessing pipeline to process VISCERAL scans for the Spinal CT to MR Translation project and evaluation.

Quickstart

1. Download the visceral dataset and put 36 CT and MRI scans (72 in total) in folder data/visceral/train. For the test set, put the remaining scans in folder data/visceral/test.

2. Run python prep_data.py to prepare the training and test sets.

3. There should be trainA and trainB folders in data/visceral containing numpy arrays. Each numpy array contains a patch from CT or MRI slice.

4. Transfer the data to the CycleGAN repository and start the training there. The scripts move_data_visceral.sh might be useful for this task.

Evaluation

Some results from this project may be viewed in results.ipynb.