Hi,
I have used FreeSurfer volumetrics to obtain various volumes of some subcortical structures. I would like to obtain a 3D image of each of these subcortical structures. I have tried importing the volumes into Matlab, however Matlab doesn't recognize the mgz file. Any suggestions on how I could go about doing this?
Thanks,
Alexa
The Volumes module in 3D slicer (v3) will load mgz files. You can use the Model Maker module to create models of your structures using the FreeSurfer label codes.
_________________________ Jeffrey J. Dewey Center for Neurological Imaging Brigham and Women's Hospital 1249 Boylston St, 3rd Floor Boston, MA 02215 jdewey@bwh.harvard.edu
On Mar 17, 2009, at 3:26 PM, Alexa Nardelli wrote:
Hi,
I have used FreeSurfer volumetrics to obtain various volumes of some subcortical structures. I would like to obtain a 3D image of each of these subcortical structures. I have tried importing the volumes into Matlab, however Matlab doesn't recognize the mgz file. Any suggestions on how I could go about doing this?
Thanks,
Alexa _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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You can use the FS MRIread.m command to read in mgz volumes.
doug
Alexa Nardelli wrote:
Hi,
I have used FreeSurfer volumetrics to obtain various volumes of some subcortical structures. I would like to obtain a 3D image of each of these subcortical structures. I have tried importing the volumes into Matlab, however Matlab doesn't recognize the mgz file. Any suggestions on how I could go about doing this?
Thanks,
Alexa _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
try the slicer software. there are options to do what you want directly with FS data
--- On Tue, 3/17/09, Douglas N Greve greve@nmr.mgh.harvard.edu wrote: From: Douglas N Greve greve@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] 3D visualization of subcortical volumes To: "Alexa Nardelli" alexan@ualberta.ca Cc: freesurfer@nmr.mgh.harvard.edu Date: Tuesday, March 17, 2009, 12:50 PM
You can use the FS MRIread.m command to read in mgz volumes.
doug
Alexa Nardelli wrote:
Hi,
I have used FreeSurfer volumetrics to obtain various volumes of some
subcortical structures. I would like to obtain a 3D image of each of these subcortical structures. I have tried importing the volumes into Matlab, however Matlab doesn't recognize the mgz file. Any suggestions on how I could go about doing this?
Thanks,
Alexa _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu