Hi Jessica

in general if you specify .nii or .nii.gz as the extension of any output file we will write it in nifti format. This makes using mri_convert easy:

mri_convert any_volume.mgz any_volume.nii.gz

should work fine
cheers
Bruce


On Sun, 31 May 2020, Hua, Jessica wrote:


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Hi FreeSurfer experts,

Also in case the code is different, how would I convert my T1.mgz  file to a
.nii file to be used in DTI analyses?

Thanks!

Jessica


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Jessica Hua, M.A. Cognitive and Emotional Control Lab
Doctoral Candidate Clinical Psychology 
University of Missouri

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