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spinalcordtoolbox / PAM50

https://github.com/neuropoly/spinalcordtoolbox
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Add `PAM50_rootlets.nii.gz` #29

Closed valosekj closed 8 months ago

valosekj commented 8 months ago

This PR adds PAM50_rootlets.nii.gz to PAM50/template. PAM50_rootlets.nii.gz represents semantic (i.e., level-specific) segmentation of dorsal nerve rootlets C2-C8 (see Fig10 in https://arxiv.org/pdf/2402.00724.pdf)

The rootlets were segmented using the following model: https://github.com/ivadomed/model-spinal-rootlets/releases/tag/r20240129

Commands to check PAM50_rootlets.nii.gz:

cd ~/code/PAM50
git fetch
git checkout jv/add_PAM50_rootlets
cd template
fsleyes PAM50_t2.nii.gz PAM50_rootlets.nii.gz -cm random

Preprint: https://arxiv.org/abs/2402.00724

Related: https://github.com/spinalcordtoolbox/spinalcordtoolbox/issues/4351