Undoubtedly, your 001.mgz has larger voxels, and so there will be some changes in seg volumes. A better way to do this is with mri_label2vol. First, you'll need the right registration file. Get that with:
tkregister2 --mov 001.mgz --targ orig.mgz --regheader --reg reg.001.dat --noedit
Now run mri_label2vol:
mri_label2vol --reg reg.001.dat --seg aseg.mgz --temp 001.mgz --o aseg-in-001.nii
You will still have changes in volumes, but I think this is the best you can do
doug
Jared Price wrote:
Dear gurus, when running mri_convert -rt nearest -ot nii -rl 001.mgz seg_edited.mgz seg_edited_axial.nii to reslice from coronal to axial space we are seeing some significant volume changes in the segmentation. Anyone know why or how to fix it. Jared _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer