Improvement of the model - smoothing after 2D nnU-Net inference

[plbenveniste]

Here is one possible improvement:

When :

• After training the first 2D nnU-Net model and getting the inference results on the entire dataset
• Before training the first 3D nnU-Net model on the previous results

Task:

• Perform smoothing of the segmented sipnal cord along the spinal cord centerline
• Dilate the segmentation a little bit (because it often forgets to segment a little bit of the spinal cord on the contour) ?

To Do :

• Discuss when to do it
• Which methods to use
• Is it worth it ?