Spinal Cord Toolbox

Spinal Cord Toolbox (SCT) ^[1] is a suite of analysis tools optimized for spinal cord images acquired with magnetic resonance imaging. Main features include segmentation, registration and calculation of anatomical metrics.

Developer(s)	NeuroPoly
Stable release	3.0.3 / 26 April 2017; 8 years ago (2017-04-26)
Repository	github.com/neuropoly/spinalcordtoolbox
Written in	Python
Operating system	Linux, Mac OS X
Size	140 MB
Available in	English
Type	Digital imaging
License	MIT Licence

Features

• Propseg Automatic spinal cord segmentation.^[2]
• The PAM50 template is an anatomical template of the spinal cord that covers the full spinal cord and brainstem and is available for T1-, T2- and T2*-weighted MRI contrasts. The PAM50 template includes probabilistic segmentation of white matter, gray matter, CSF as well as probabilistic atlases of gray matter subregions and white matter pathways.^[3][4] The template also include segmentation of spinal levels for automatic assessment of metrics at specific locations.^[5]
• A White Matter atlas including 29 partial volume masks of which matter tracts.^[6]