Dear freesurfer's,
I have run a conventional recon-all process and I am interested in isolating the caudate from my subjects. I have applied the following commands:
*./mri_label2vol --seg $SUBJECTS_DIR/$subj/mri/aseg.mgz --temp $SUBJECTS_DIR/$subj/mri/rawavg.mgz --o $SUBJECTS_DIR/$subj/mri/aseg-in-rawavg.mgz --regheader $SUBJECTS_DIR/$subj/mri/aseg.mgz * *./mri_extract_label $SUBJECTS_DIR/$subj/mri/aseg-in-rawavg.mgz 11 $PROJDIR/$subj.nii.gz *
I had seen in the wiki that these commands should be used when we need the images in native space. ¿Does it mean that my caudates are "denormalized" or on the contrary, that the images have only been resliced to the original size? If it is the second case, how could I obtain the caudates from the original image?
Thank you for your help, Yolanda