ONLINE CROSS-SECTIONAL AREA CALCULATION TOOL FOR THE SPINAL CORD
This is an automated tool based on the Spinal Cord Toolbox (SCT) for computing the cross-sectional area for each slice of a binarized segmentation of the spinal cord. The cross-sectional area is calculated by counting the pixels in each slice and then geometrically adjusting using centerline orientation.
Four output files will be generated:
angle_image.nii.gz: the cord segmentation where each slice's value is equal to the CSA (mm2)
csa_image.nii.gz: the cord segmentation where each slice's value is equal to the angle (in degrees) between the spinal cord centerline and the inferior-superior direction
csa_per_slice.txt: a CSV text file with z (first column), CSA in mm2 (second column) and angle with respect to the I-S direction in degrees (third column)
csa_per_slice.pickle: a pickle file with the same results as csa_per_slice.txt recorded in a DataFrame (panda structure) that can be reloaded afterwards
The results will be sent to the following e-mail address:
Select files (Maximum of 5 files with 100 Mb each in .nii or nii.gz formats):
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Ferran Prados, M. Jorge Cardoso, Ninon Burgos, Claudia AM Wheeler-Kingshott, Sebastien Ourselin. NiftyWeb: web based platform for image processing on the cloud. International Society for Magnetic Resonance in Medicine (ISMRM) 24th Scientific Meeting and Exhibition - Singapore 2016
THIS ONLINE TOOL IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
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