The attached package contains the Gordon parcellation as .annot files (on the surface), as well as a script that contains the exact details of how that was accomplished.
Cheers, -MH
-- Michael Harms, Ph.D.
----------------------------------------------------------- Conte Center for the Neuroscience of Mental Disorders Washington University School of Medicine Department of Psychiatry, Box 8134 660 South Euclid Ave.Tel: 314-747-6173 St. Louis, MO 63110Email: mharms@wustl.edu
On 4/13/17, 9:01 AM, "freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Bruce Fischl" <freesurfer-bounces@nmr.mgh.harvard.edu on behalf of fischl@nmr.mgh.harvard.edu> wrote:
Hi Julie
what space is the Gordon Parcellation in? Did they use FreeSurfer? If so, then you just need to map it to each of your subjects.
And how is a surface-based parcellation stored in a nifti file?
cheers Bruce
On Wed, 12 Apr 2017, Julie Hall wrote:
Hi experts,
I would like to use a different atlas other than the 'default' Freesurfer atlases, namely the Gordon Parcellation (surface based parcellation of 333 ROIs of the cortex) to segment my T1 datasets. So I can go on to use these segmentations for DTI connectome analysis using MRTrix (or MatLab). I have two questions:
- I have this atlas as a nifti file. Do I need to transform this atlas into a different file for it to run in freesurfer?
- Can I run this step in autorecon3 (step 28)? Or should I rerun recon-all all together? If so, could you help me with what commands I need to run (mris_ca_train?)”
Thank you, Julie
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