Hi Tommi
you can use mri_extract_label to pull out the labels you want, but the sulcal CSF labels may not be great since the manual labeling that is the basis of the aseg was done on only T1 images.
cheers Bruce
On Wed, 8 Dec 2010 raij@nmr.mgh.harvard.edu wrote:
Hi,
We are trying to create a CSF volume mask from structural MEMPRAGE T1 data (we also have ME FLASH 5/30 ->PD if needed). We are interested in two CSF compartments:
- "superficial" CSF outside grey matter and inside inner skull
- "deep" CSF inside ventricles
Is there a way to simply extract these from aseg.mgz or how should we go about this?
Thanks!
-Tommi
Tommi Raij, M.D., Ph.D. MGH/MIT/HMS Athinoula A. Martinos Center for Biomedical Imaging Bldg 149, 13th St Charlestown, MA 02129 U.S.A. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer