We recently started using the 7T scanner and are having problems with deskulling. The mprage in the directory looks fine but the background noise have values above zero and are different than the 3T data we have been processing. The deskulling is failing and the final image is clearly distorted/warped because of this. The original images in the briks directory are not warped. We are using afni_proc.py to generate the proc for the analysis. How can we modify the deskulling in the generated proc to fix this deskulling problem? Thanks for any help.
