Hello,

I'm trying to use anatomical regions of a subject labeled by freesurfer as an fMRI mask in brainvoyager. I'm using mri_convert to change aparc+aseg.mgz to a nifti, and then changing that into a brainvoyager vmr file.

However, the vmr file in brainvoyager looks wrong (see attached screenshot).

My conversion command is "mri_convert --in_type mgz --out_type nii --input_volume aparc+aseg.mgz --output_volume aparc+aseg.nii".

Has anyone successfully imported freesurfer segmentation volumes to use as masks in branvoyager? Any advice would be greatly appreciated. Thanks!

-Dave