Registration on large FOV difference cases: about voxelmorph HOT 3 CLOSED

pinging @mu40

from voxelmorph.

This is certainly a challenging case for the affine SynthMorph model, which (1) hasn’t seen the FOV extend so much below the neck at training and (2) has been trained primarily on full brains. Your best bet would be retraining with CT-derived label maps that extend as far down as the CT scan you provided.

Barring that, you can try downloading and passing the experimental affine weights from w3id.org/synthmorph to the latest SynthMorph using the -w flag. While this model has been trained on randomly cropped brains, I suspect your example is still at (or beyond) the limit of what that model can do.

Things that may help the experimental model include cropping the CT scan around the head to a region of similar size as the MRI (updating the voxel-to-world matrix appropriately) and clipping the CT intensities to something like [0, 80] in Hounsfield units.

from voxelmorph.

I see. Thank you very much!

from voxelmorph.