Re: [Freesurfer] abnormal inflated surface

2016-02-12 Thread Bruce Fischl
I agree that the inflated is fine. It doesn't live in any particularly interesting volumetric coordinate system, so displaying it that way doesn't really make sense. As for the hippocampus, it looks fine on the slices you sent. If you upload the dataset I'll take a look cheers Bruce On Wed, 10

Re: [Freesurfer] abnormal inflated surface

2016-02-10 Thread dgw
Hi Jasmin, nothing looks wrong with the inflated brain images to me. Remember, the inflated brain doesn't have the same space as the T1 or white matter surface, so they are just centered. And overlap one another as the slice views showed. I'm afraid I can't help with the hippocampal question, thou

Re: [Freesurfer] abnormal inflated surface

2016-02-10 Thread Jasmin Alves
Hello, Thank you for the speedy reply. I ran recon-all and the process occurred without error. I have quality checked the various steps and have found no issues. But this participant's hippocampal volume is approximately 2000 while all the others in my cohort are about 4000. Is it possible for the