Dear Bruce,

When I used the mri_cc command and used the -f and -force options, I could see the fornix.mgz file. I wonder how can I get the volume in mm^3 of the structure "fornix" from the above file? I couldn't see the volume of fornix in the aseg.stat file. It would be great if I could find the volume of both left and right fornix.

Thank you in advance for help.

Hari Guragain,

On Fri, Jul 8, 2016 at 11:38 AM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:

Hi Hari

if you include the -f flag to mri_cc it will include the fornix in the cc segmentation. We haven't tested it a ton so I'm not sure how well it will work on your data, but give it a try

cheers Bruce

On Thu, 7 Jul 2016, Hari Guragain wrote:

Dear Freesurfer Experts,

...

I am interested to get the volume information of the structure "fornix" in the aseg.stats file. I would appreciate if there is any such argument that can be used along with the recon-all to get the volume information of the fornix like below. Till now, I have been using

· recon-all -autorecon-all -subjid your_subject_name

Any suggestions will be appreciated.

# ColHeaders Index SegId NVoxels Volume_mm3 StructName normMean normStdDev normMin normMax normRange 1 4 6489 6958.2 Left-Lateral-Ventricle 34.8514 11.5767 15.0000 82.0000 67.0000

Thank you,

Hari Guragain

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