I would like to have Freesurfer calculate the percentage of wm/gm/csf from an MRI volume (produced with mri_volsynth). I have run recon-all to completion and have a registration matrix from the MRI to the Freesurfer anatomical (tkregister2). It looks like mri_compute_volume_fractions will do what I want, but I am not sure what parameters to supply, particularly the <output stem>. Would somebody be able to point me to some documentation for this function or an example of the command line to output the segmentation information?
Best wishes Adrian
Just the name you give the output
On Apr 14, 2012, at 4:07 AM, Adrian Garcia adg772@bham.ac.uk wrote:
I would like to have Freesurfer calculate the percentage of wm/gm/csf from an MRI volume (produced with mri_volsynth). I have run recon-all to completion and have a registration matrix from the MRI to the Freesurfer anatomical (tkregister2). It looks like mri_compute_volume_fractions will do what I want, but I am not sure what parameters to supply, particularly the <output stem>. Would somebody be able to point me to some documentation for this function or an example of the command line to output the segmentation information?
Best wishes Adrian
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freesurfer@nmr.mgh.harvard.edu
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Adrian Garcia -
Bruce Fischl