Hi Emma
Thanks for your reply~
As I am not major in neuroscience, maybe it is quite hard for me to label the image. But thanks a lot and I will try.
Would you please help me:
1. The link you provided mentions a new pipeline for infants. Is it integrated with specific infant .gcs atlas file? I am happy as this is what I really want. 2. I provide a new UNC link here(https://www.nitrc.org/projects/pediatricatlas). Can I use these in FreeSurfer? But I find it hard to replace the default one.
Thanks for you time again.
Best,
Lemon
________________________________
Hi Lemon
Please see the mailing list archive here for some guidance (the answer is the same for infants): https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg56037.html
I couldn't see the UNC link you provided. But the basic steps for creating your own atlas are:
-label every voxel of the brain in Freeview (for every subject to be used in the atlas)
-run mri_ca_train
-run rebuild_gca_atlas.csh script in $FREESURFER_HOME/bin
Best,
Emma
---------
Emma Boyd
Research Technician II
Laboratory for Computational Neuroimaging
Martinos Center for Biomedical Imaging
________________________________ From: freesurfer-bounces at nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <freesurfer-bounces at nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer> on behalf of li ki <lizhq94 at outlook.comhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer> Sent: Wednesday, December 6, 2017 2:41 AM To: freesurfer at nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer Subject: [Freesurfer] Infant Atlas
Hi experts,
We are presently involved in a project for analyzing MRI data of 1-3 year old children using FreeSurfer. We cannot find a correct infant atlas. From online search, I know that an infant atlas is being developed which will be integrated into FreeSurfer in the future. （link
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4332305/ ）
Can I know when this will be available? If not soon, is there any other methods for us to generate an infant(kid) atlas?
Also I know there are infant atlas from UNC(http://www.med.unc.edu/bric/ideagroup/free-softwares/unc-infant-0-1-2-atlase...), how can I use this atlas in Freesurfer?
Best,
Lemon
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