Other shape metrics¶
The csv files generated by sct_process_segmentation
also include metrics to analyse the shape of the spinal cord in the axial plane, such as ellipticity, antero-posterior and right-left dimensions. These are of particular interest for studying cord compression. See Martin et al. BMJ Open 2018 for an example application in degenerative cervical myelopathy.

To demonstrate, below are the shape metrics provided in the CSV file produced by CSA (Per level).
Filename |
Slice (I->S) |
VertLevel |
MEAN(diameter_AP) |
STD(diameter_AP) |
MEAN(diameter_RL) |
STD(diameter_RL) |
---|---|---|---|---|---|---|
single_subject/data/t2/t2_seg.nii.gz |
143:164 |
4 |
7.84346 |
0.25769 |
12.59003 |
0.19706 |
single_subject/data/t2/t2_seg.nii.gz |
165:186 |
3 |
8.07711 |
0.12172 |
12.23168 |
0.215 |
Filename |
Slice (I->S) |
VertLevel |
MEAN(eccentricity) |
STD(eccentricity) |
MEAN(orientation) |
STD(orientation) |
MEAN(solidity) |
STD(solidity) |
SUM(length) |
---|---|---|---|---|---|---|---|---|---|
single_subject/data/t2/t2_seg.nii.gz |
143:164 |
4 |
0.78131 |
0.02058 |
6.45375 |
2.47327 |
0.97215 |
0.00925 |
17.95767 |
single_subject/data/t2/t2_seg.nii.gz |
165:186 |
3 |
0.75055 |
0.01285 |
0.95162 |
0.65276 |
0.97003 |
0.00736 |
17.81215 |