Algorithm #1: sct_propseg

The first spinal cord segmentation tool that SCT offers is called sct_propseg, and it works as follows:

1. Centerline detection

sct_propseg starts by using a machine learning-based method (OptiC) to automatically detect the approximate center of the spinal cord.

(The centerline detection step is also provided in a standalone script called sct_get_centerline.)

2. Mesh propagation

Next, a coarse 3D mesh is created by propagating along the spinal cord (PropSeg).

3. Surface refinement

Finally, the surface of the mesh is refined using small adjustments.