Hello All! I am currently trying to create a high resolution anatomy by manually changing some parameters throughout the recon-all process. I have currently hit a road block at the fill portion of the recon-all process. So far I have tried this high resolution reconstruction on two subject's anatomies. In both subjects I used the flag -noaseg as well as seed points for the CC, pons, left hemisphere, and right hemisphere at the fill step because otherwise the fill command would use the aseg file for seed points and subsequently the hemispheres would not get separated at all.
Now here is the kicker, in one subject's anatomy this worked fine. It split the hemispheres down the middle without a problem. However on the other subject the cut between the hemispheres is slanted, assigning portions of the right hemisphere to the left. I do not know how to correct this problem. I have tried using different seed points and not inputting seed points and this has yielded the same results. Any suggestion? thank you, Evan Luther
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