problem with surf2surf is it deals with scalar fields ( data ) so don't think that will do it.

problem with label2label is that it deals with a single label which has a diferent structure than anot.

so a way to do it

1. mri_annotation2label ... to convert the yeo anotation file to individual labels

2. mri_label2label ... to map each label from the fsaverage space to the individual subject space

3. then the function that takes the labels on the individual subject space and makes a .annot of it in indiv. subject space. you will need to supply a colormap table to, don't remember the name ( google freesurfer make annotation file, or something like that)

seems like a lot of work but just make a little script and you only need to figure it out once.

if any problems i could dig in my notes, i did not find one function to map a .annot in 1one space to a .annot in another.

gref

On 03/10/14, Thomas Yeo wrote:

Hi Jeff,

I am a little unsure myself since I usually work with data mapped to fsaverage space. I think you might want to use mri_surf2surf, since there's a "--sval-annot" option. It's hard for me to check now because I am away at a conference.

Can someone chime in if mri_surf2surf is wrong?

Thanks, Thomas

On Mon, Mar 10, 2014 at 10:59 AM, Jeff Eriksen eriksenj@ohsu.edu wrote:

...

What I need are the ?h.Yeo.annot files for the individual subjects, similar to the default ?h.aparc.annot and ?h.aparc.2009.annot files. Will mri_label2labe give me that directly?

Thanks, -Jeff

-----Original Message----- From: Bruce Fischl [mailto:fischl@nmr.mgh.harvard.edu](javascript:main.compose() Sent: Monday, March 10, 2014 9:50 AM To: Jeff Eriksen Cc: 'freesurfer@nmr.mgh.harvard.edu' Subject: Re: [Freesurfer] applying Yeo atlas to individual brains

Hi Jeff

you should be able to use mri_label2label to map the Yeo atlas from fsaverage to any subject.

cheers Bruce On Mon, 10 Mar 2014, Jeff Eriksen wrote:

...

Our lab has a need to apply the Yeo atlas to individual brains. As I understand it, Yeo atlas is only currently available for the FSAverage brain. Any plans to incorporate Yeo on to the default FS segmentation, or have it available as an option?

-Jeff Eriksen

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