I am registering histology and MRI images by using fiducials in the Markups module then performing initial rigid landmark registration, then going to the transforms module. I am having difficulty after transforming when aligning the 2 images (MRI and histology) so that they are in the same plane. I’ve succeeded by manually moving the 3D images but I am finding this to be very tedious, and very difficult at times. Is there anything that can automatically align the fiducials into one plane?
I’ve attached some sample images. The first image is one where I was able to manually align everything but case 2 I am still having difficulty and the fiducials are not all in one plane with the MRI and histology overlaying each other.
Case 1 (good):
Case 2 (having problems!! bad!!):