Hi Maurizio
the orig.mgz has been converted to 1 byte/pixel and 256^3 1mm isotropic. You can use mri_convert to go back to your original data space via:
mri_convert -rl orig/001.mgz <input volume> <output volume>
cheers Bruce
On Tue, 18 Dec 2018, Maurizio Bergamino wrote:
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Hello,I am trying to run a VBM analysis by using the white matter and the grey matter masks from Freesurfer, because, often, other tools are not able to calculate a correct white matter and grey matter masks. When I have these masks, I have to apply them to my original T1 images. However, the original T1 is in different space. I can resample the ROIs (WM and GM) in order to apply them to my original T1, but my question is: Can I use the orig.mgz from Freesurfer as my T1 for VBM, or does it have different intensity from my real T1 acquisition?
Thanks, Maurizio