I'm not clear on what you are trying to do. Did you apply the atlas to an individual and have the atlas ROIs in the individual brain?
On 04/19/2018 12:42 PM, Ting Li wrote:
Douglas,
Thank you so much for your response. My atlas is nii.gz format. What should I do to get the cortical thickness, surface area and volume for various cortical regions? Thanks in advance.
Best, Ting
On Apr 19, 2018, at 11:28 AM, Douglas N. Greve dgreve@mgh.harvard.edu wrote:
Is the atlas in GCA format? If so, then you can use gca-apply
On 04/19/2018 10:09 AM, Ting Li wrote:
Hi Freesurfer Experts,
We want to run recon-all with a custom atlas which is generated from ANTs multivariate template construction. What is the right procedure to run recon-all? Run recon-all to my atlas itself first and them use this output as a template or I use the custom template directly. I looked up your email database to search related topic and got lost. I have sent another email to your group and no response received. Please help me.
Thanks for you time. I look forward to hearing from you.
Best, Ting
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
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