The problem is the following: I segment nasal turbinates in rodents and use Biomedisa. When I take my CT scans, I need to orient them in 3D Slicer, so I create a Transform and adjust the orientation. After that, I generate the slices that will be used by Biomedisa.
After this step, I upload them to Biomedisa, retrieve the file it generates, and load it into 3D Slicer. I click on the option in Data, “convert labelmap to segmentation node.” Then, I use ImageStack from SlicerMorph to upload the CT scans.
I then take the Transform I created earlier with the slices and, in another scene, apply it to the segmentation that came from Biomedisa and to the volume I uploaded—but they end up completely separated.
What am I doing wrong?
