Segment SC using contrast agnostic model

ivadomed / canproco

Code for preprocessing the CanProCo brain and spinal cord dataset

MIT License

4 stars 1 forks source link

Closed valosekj closed 1 year ago

valosekj commented 1 year ago

This PR adds a segment_sc_contrast-agnostic.sh bash script. The script:

segments SC using the contrast-agnostic MONAI model (by calling run_inference_single_image.py script. Note that the run_inference_single_image.py script is just a copy of the contrast-agnostic script, see this comment for details)
performs vertebral labeling using sct_label_vertebrae

valosekj commented 1 year ago

The segment_sc_contrast-agnostic.sh works --> merging