Hello, I am interested in finding the diameter in ap and rl dimension of a segmentation but its not contiguous. It’s essentially chunked. Is sct_process_segmentation able to handle this, in that it will still perform the straightening and calculate metrics, or does it only work on a single connected component or something like that? Any help would be greatly appreciated!
Hi,
It will work even if the cord segmentation is not continuous, but it depends on the parameters you’re choosing (eg you probably want to avoid aggregating slices that don’t exist across multiple levels).
Also please note that straightening is not part of this processing (it should not).
Hi, sorry yes my mistake. But to be clear, sct_process_segmentation does calculate CSA, diameters, etc along the axis of the spinal cord (which departs from the axial dimension of the bore)?
But to be clear, sct_process_segmentation does calculate CSA, diameters, etc along the axis of the spinal cord
Yes, that is correct.