Dear Dr. Fischl,
Thank you for your respone. What would the --reg and the --temp be in this case?
Massieh
---------------- Original message ------------------ From: Bruce Fischl fischl@nmr.mgh.harvard.edu To: mmoayedi@uhnres.utoronto.ca-> cc: freesurfer@nmr.mgh.harvard.edu-> Subject: Re: [Freesurfer] Label to ROI volume
try mri_label2vol (assuming by 'ROI' you mean a 3D volume)
On Mon, 30 Jul 2012, mmoayedi@uhnres.utoronto.ca wrote:
Dear FS Experts,
I have run recon-all on my subjects. I'm looking to convert the V1 and
various BA labels to ROIs in 3D anatomical space (orig.mgz). How would I convert my freesufer label files to ROIs. Thank you!
Massieh Moayedi
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
it depends what volume geometry you want the output in. If our standard one you would do
--identity --temp $SUBJECTS_DIR/$subject/mri/orig.mgz
although Doug is the expert!
cheers Bruce
On Tue, 31 Jul 2012, mmoayedi@uhnres.utoronto.ca wrote:
Dear Dr. Fischl,
Thank you for your respone. What would the --reg and the --temp be in this case?
Massieh
---------------- Original message ------------------ From: Bruce Fischl fischl@nmr.mgh.harvard.edu To: mmoayedi@uhnres.utoronto.ca-> cc: freesurfer@nmr.mgh.harvard.edu-> Subject: Re: [Freesurfer] Label to ROI volume
try mri_label2vol (assuming by 'ROI' you mean a 3D volume)
On Mon, 30 Jul 2012, mmoayedi@uhnres.utoronto.ca wrote:
Dear FS Experts,
I have run recon-all on my subjects. I'm looking to convert the V1 and
various BA labels to ROIs in 3D anatomical space (orig.mgz). How would I convert my freesufer label files to ROIs. Thank you!
Massieh Moayedi
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
Hi Massieh, use something like
mri_label2vol --label lh.V1.label --regheader orig.mgz --temp orig.mgz --o lh.V1.mgz
doug
On 07/31/2012 05:46 AM, mmoayedi@uhnres.utoronto.ca wrote:
Dear Dr. Fischl,
Thank you for your respone. What would the --reg and the --temp be in this case?
Massieh
---------------- Original message ------------------ From: Bruce Fischlfischl@nmr.mgh.harvard.edu To: mmoayedi@uhnres.utoronto.ca-> cc: freesurfer@nmr.mgh.harvard.edu-> Subject: Re: [Freesurfer] Label to ROI volume
try mri_label2vol (assuming by 'ROI' you mean a 3D volume)
On Mon, 30 Jul 2012, mmoayedi@uhnres.utoronto.ca wrote:
Dear FS Experts,
I have run recon-all on my subjects. I'm looking to convert the V1 and
various BA labels to ROIs in 3D anatomical space (orig.mgz). How would I convert my freesufer label files to ROIs. Thank you!
Massieh Moayedi
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
-
Bruce Fischl -
Douglas N Greve -
mmoayediï¼ uhnres.utoronto.ca