Re: [Freesurfer] half brain when converting into mgz

Hi Olof

what are the dimensions of the volumes that fail? If you upload one we will take a look. Is it a display problem or is the volume actually cropped? Try looking at the .mgz in different viewers (freeview, fslview) and see if it is still an issue

cheers Bruce

On Tue, 8 Oct 2013, Erik Lindberg wrote:

Dear Freesurfer experts, I analyzed a lot of brains in Freesurfer. For some reason some brains gets cut on the top (see attaced image). I cannot understand why this is happening. The dicom image is ok, but as soon as I convert it into mgz suddenly the top of the brain is cut off.  Out of 60 brains with identical mri sequence 5 brains are cut.

Would be grateful if you suggest how to solve this problem

Thanks in advance!

Olof