HI Julien & SCT team,
Thanks for creating the really useful sct_qc - this will definitely help with checking output previously generated.
I have a quick question and two(!) feature requests: for the purpose of assessing sct_register_to_template I used the following command from within my output folder:
sct_qc -i /Users/jon/sct_4.0.0-beta.5/data/PAM50/template/PAM50_t1.nii.gz -s /Users/jon/sct_4.0.0-beta.5/data/PAM50/template/PAM50_cord.nii.gz -p sct_register_to_template -d anat2template.nii.gz
Is this the correct syntax? The choice of input and destination is a bit weird in this case.
(1) Would it be possible to restrict the output in the qc report to only those slices in the overlay (here my anat2template), and possibly only show every nth slice?
(2) For the purpose of assessing vertebral alignment on these reports it would be super useful to have a single midline sagittal slice of the template and the registered anatomical, where you could quickly assess the relative positions of the discs on an animated gif. Again this should only cover the rostrocaudal extent of the anatomical (not the whole spinal column).
Please let me know if you need more information.