sct_label_vertebrae woks well overall, but it seemed something wrong with few case in which 2 labels for 3 verts.
sct_label_vertebrae -i t2_r.nii.gz -s t2_seg0.nii.gz -c t2 -initlabel label_c2c3.nii.gz -qc “/home/sct/docker_shared/MR202009_qc/t2_label_qc”
vert4,5,6 were labeld vert4,5
https://github.com/neuropoly/sct_docker/issues/53
Hi,
Sorry for the late reply. Indeed, sct_label_vertebrae isn’t perfect. When it fails, you could bypass it using sct_label_utils -create-viewer.
Cheers,
Julien