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spinalcordtoolbox / PAM50

https://github.com/neuropoly/spinalcordtoolbox
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Extend C1 vertebrae on the `PAM50_levels` template file #20

Closed jcohenadad closed 11 months ago

jcohenadad commented 1 year ago

Context: https://forum.spinalcordmri.org/t/c1-vertebral-level-labelling/1002/3

Ah! OK, another reason for C1 to be cropped if the cord segmentation spans it entirely would be because it is difficult to find the top part of C1, hence the algorithm was trained to stop after a given distance that is based on the length of C1 in the PAM50 template (which is cropped):

Historically, no user was interested in looking at C1, hence it was somewhat “neglected”, but I agree we should extend the segmentation on the PAM50 template so that the vertebral labeling would be more correct regarding C1 level.

jcohenadad commented 1 year ago

We should probably extend the coverage up to slice 985, which corresponds to the top of C1:

image