Add new sct_compute_ascor command

Author: joshuacwnewton

single_subject/batch_single_subject.sh

@@ -436,6 +436,9 @@ sct_deepseg sc_canal_t2 -i t2.nii.gz -qc ~/qc_singleSubj
 # Check results using FSLeyes
 fsleyes t2.nii.gz -cm greyscale t2_canal_seg_seg.nii.gz -cm red -a 70.0 &
 
+# Compute aSCOR (Adapted Spinal Cord Occupation Ratio)
+# i.e. Spinal cord to canal ratio using the canal seg
+sct_compute_ascor -i-SC t2_seg.nii.gz -i-canal t2_canal_seg.nii.gz -perlevel -1 -o ascor.csv
 
 # Segment the spinal nerve rootlets
 sct_deepseg rootlets -i t2.nii.gz -qc ~/qc_singleSubj