Thanks Bruce for your answer, as you asked I'm forwarding this question to the list in case any other can answer this.
We already have the surface generated by mri_preproc, now we are trying to read it using the matlab function read_mgh. It returns a 4-D matrix, how can we interpret this data to get the cortical thickness values at each vertex of every subject?
Rafa & Gabi
2013/3/26 Bruce Fischl fischl@nmr.mgh.harvard.edu:
Hi Rafa and Gabi
yes, that's pretty much what the -qcache flag does in recon-all. Or you can use mri_surf2surf to do it.
cheers Bruce
On Tue, 26 Mar 2013, Rafa X wrote:
Hi Freesurfers, We would need to obtain the cortical thickness of each subject in the space of the average subject (built from our subject population), Does it exists? If so, Can I use the label files produced by mri_surfcluster to directly extract the mean cortical thickness of each ROI in each subject? We want to avoid to trasform each cluster to every subject.
Thank you all in advance, Rafa & Gabi. _______________________________________________ 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.
what is the size of the 4D matrix?
On 03/27/2013 05:41 AM, Rafa X wrote:
Thanks Bruce for your answer, as you asked I'm forwarding this question to the list in case any other can answer this.
We already have the surface generated by mri_preproc, now we are trying to read it using the matlab function read_mgh. It returns a 4-D matrix, how can we interpret this data to get the cortical thickness values at each vertex of every subject?
Rafa & Gabi
2013/3/26 Bruce Fischl fischl@nmr.mgh.harvard.edu:
Hi Rafa and Gabi
yes, that's pretty much what the -qcache flag does in recon-all. Or you can use mri_surf2surf to do it.
cheers Bruce
On Tue, 26 Mar 2013, Rafa X wrote:
Hi Freesurfers, We would need to obtain the cortical thickness of each subject in the space of the average subject (built from our subject population), Does it exists? If so, Can I use the label files produced by mri_surfcluster to directly extract the mean cortical thickness of each ROI in each subject? We want to avoid to trasform each cluster to every subject.
Thank you all in advance, Rafa & Gabi. _______________________________________________ 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
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Rafa X