Hi Jack, We do not have such an automated option at the moment. Lilla

On Thu, 25 May 2017, John Hettema wrote:

To FreeSurfer team,

I have child MRI data for which it would be best to use a pediatric atlas/template for warping, alignment, and labeling. I am aware of the Haskins Pediatric Atlas that AFNI includes as an optional dataset for this purpose in the FreeSurfer anatomical rendering it performs before running functional analyses.

However, the AFNI team were unable to tell me how to connect to this atlas outside of AFNI. I.e., when I just run FreeSurfer for volume and surface reconstruction.

How may I include this atlas in the usual running of FreeSurfer?

Is there a specific command line flag I can use to specify it instead of the default adult one?

Do I need to download some specific .gcs file?

Thanks.

Jack