Julien Cohen-Adad

Note: there is already code from @valosekj https://github.com/spinalcordtoolbox/spinalcordtoolbox/pull/3172/files, but i'm not sure what is the plan with this (old) branch

Good observations @joshuacwnewton. About the intensity range and contrast, I'm not too worried as this is something we could tweak before inference (eg: multiply the image by -1). However, more...

> I fixed the header and the orientation using the following code (thanks @mguaypaq for the help)! Why not simply using `sct_image -transpose`? Too bad for the segmentation results :-(...

> @jcohenadad Are there other investigations that you have in mind? nope :-( At this point I would just re-train a specific model as mentioned in my [response on the...

Hi Steve, this may or may not work, but I am not too optimistic, given the results obtained from the models. As mentioned earlier, I think the way moving forward...

@sulli419 training a model does take some time (adapting the code, curate the data, evaluate training, tweak the network, etc.), which we unfortunately do not have right now. The best...

> Has anyone on your SCT team segmented the data from this paper? https://pubmed.ncbi.nlm.nih.gov/23246856/ No, my lab was not involved in this. Note that this is not a segmentation method...

> Do you guys want to test and see if it runs with your default deep learning pipeline? We don't really have the time to do this-- if you or...

The sagittal example shown in https://github.com/spinalcordtoolbox/spinalcordtoolbox/issues/4891#issue-3036518564 is great, but what would be also nice is an option to only show one sagittal slice, for quicker assessment of vertebral labeling. For...

> Regardless, SCT users might expect us to use a radiologist's definition of this diameter. I doubt there is a single one, unfortunately, as radiologists typically don't measure these metrics....