Hi,
Is it possible to get an annot file for ?h.DKTatlas100.gcs, not for individuals, but for fsaverage atlas? I want to plot the 'standard' parcellation, instead of individual ones, on the surface so that I can use as a general reference. Thanks!
Tony
Hi Tony
I think we distribute one, but if not you should just be able to run mris_ca_label on the fsaverage subject to generate one.
cheers Bruce On Wed, 13 Dec 2017, tony han wrote:
Hi,
Is it possible to get an annot file for ?h.DKTatlas100.gcs, not for individuals, but for fsaverage atlas? I want to plot the 'standard' parcellation, instead of individual ones, on the surface so that I can use as a general reference. Thanks!
Tony
Hi Bruce,
Thanks. If there is one available, could you point me to the location of the files? I check $FREESURFER_HOME/average and can't find annot files for DKTatlas.
If I'm going to make one with one of the fsaverage subjects, there won't be any difference of the resultant annot file no matter which fsaverage subject {fsaverage, fsaverage3,...,fsaverage6} I use, right?
Best,
Tony
________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Bruce Fischl fischl@nmr.mgh.harvard.edu Sent: Wednesday, December 13, 2017 12:06:18 PM To: Freesurfer support list Subject: Re: [Freesurfer] ?h.DKTatlas100.gcs to annot
Hi Tony
I think we distribute one, but if not you should just be able to run mris_ca_label on the fsaverage subject to generate one.
cheers Bruce On Wed, 13 Dec 2017, tony han wrote:
Hi,
Is it possible to get an annot file for ?h.DKTatlas100.gcs, not for individuals, but for fsaverage atlas? I want to plot the 'standard' parcellation, instead of individual ones, on the surface so that I can use as a general reference. Thanks!
Tony
they would be in $FREESURFER_HOME/subjects/fsaverage/label
On Wed, 13 Dec 2017, tony han wrote:
Hi Bruce,
Thanks. If there is one available, could you point me to the location of the files? I check $FREESURFER_HOME/average and can't find annot files for DKTatlas.
If I'm going to make one with one of the fsaverage subjects, there won't be any difference of the resultant annot file no matter which fsaverage subject {fsaverage, fsaverage3,...,fsaverage6} I use, right?
Best,
Tony
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Bruce Fischl fischl@nmr.mgh.harvard.edu Sent: Wednesday, December 13, 2017 12:06:18 PM To: Freesurfer support list Subject: Re: [Freesurfer] ?h.DKTatlas100.gcs to annot Hi Tony
I think we distribute one, but if not you should just be able to run mris_ca_label on the fsaverage subject to generate one.
cheers Bruce On Wed, 13 Dec 2017, tony han wrote:
Hi,
Is it possible to get an annot file for ?h.DKTatlas100.gcs, not for individuals, but for fsaverage
atlas? I want to plot the 'standard' parcellation, instead of individual ones, on the surface so
that I can use as a general reference. Thanks!
Tony
Do you want to do it from your own data? If so, then use annot2std
run it with --help to get more details
On 12/13/2017 11:16 AM, tony han wrote:
Hi,
Is it possible to get an annot file for ?h.DKTatlas100.gcs, not for individuals, but for fsaverage atlas? I want to plot the 'standard' parcellation, instead of individual ones, on the surface so that I can use as a general reference. Thanks!
Tony
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Bruce Fischl -
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tony han