Hi Gabriel, this is normal. The volumes listed with aseg.stats have been corrected for partial volume, so it is not as simple as counting up all the voxels. doug

On 11/21/2012 12:36 PM, Gabriel Gonzalez Escamilla wrote:

Dear Freesurfer,

I'm trying to convert come labels from the aseg.mgz into nifti volumes

I'm using: mri_extract_label aseg.mgz # and aseglabel#.nii where the # is the label as appears on the freesurferColoLUT.txt and it seems to work perfectly, but the number of voxels does not match with the number of voxels output in the aseg.stats, is this normal? they vary from i.e. 2603 in the aseg.stats to 2466 in the volume.

to verify that it was't a problem from the extraction, I have tryed mris_binarize to match the same # segID as the mri_extract_label, and also use the matlab functions to open the aseg.mgz and keep those voxels which value were close to the #.

With these two new options I get exactly the same number of voxels as with mri_extrac_label. So I don't know what could be the problem. Does anyone have an idea?

Best Regards, Gabriel.

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