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Thanks for your reply doctor. Actually I want to access Desikan K. Atlas coordinates as x, y, z. (each regions. for example caudalanteriorcingulate).

In that case, one expert said that ; the closest to what you want is probably $FREESURFER_HOME/subjects/fsaverage/surf/lh.aparc.label. You can open it with a text editor. Then you should cross-check with $FREESURFER_HOME/subjects/fsaverage/surf/lh.aparc.annot for the actual labels of those vertices. The .annot file can be opened in Matlab with the read_annotation command from FreeSurfer.

What do you recommend? Ece

________________________________ Gönderen: Bruce Fischl fischl@nmr.mgh.harvard.edu adına freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu Gönderildi: 5 Kasım 2018 Pazartesi 20:18 Kime: Freesurfer support list Konu: Re: [Freesurfer] İlt: Desikan Atlas in volume space

Hi Ece

for a given subject the Desikan parcellation is sampled into the volume alread in the file aparc+aseg.mgz in the subject's mri dir. Is that what you are looking for?

cheers Bruce

On Mon, 5 Nov 2018, ece ulug wrote:

    External Email - Use Caution

Dear Experts,

I am very beginner in Freesurfer, and I want to use 'read_annotation' function but i don't know what is the next step. I added the Matlab screenshoot.

Additionally; 'read_curv' function don't work in Matlab. I added it.

Thanks in advance

Ece

External Email - Use Caution

Exactly. I cannot find in this file but i found lh.aparc.label and lh.aparc.annot files in freesurfer/subjects/fsaverage/label. Actually i told in my previous message. I need coordinates for generate caudalanteriorcingulate mask in coordinate system.

________________________________ Gönderen: Bruce Fischl fischl@nmr.mgh.harvard.edu adına freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu Gönderildi: 6 Kasım 2018 Salı 00:45 Kime: Freesurfer support list Konu: Re: [Freesurfer] Ynt: İlt: Desikan Atlas in volume space

I don't think there is an lh.aparc.label file - I don't know what it would be if it existed.

Maybe we can take a step back and you can let us know what you are trying to achieve?

On Mon, 5 Nov 2018, ece ulug wrote:

    External Email - Use Caution

Thanks for your reply doctor. Actually I want to access Desikan K. Atlas coordinates as x, y, z. (each regions. for example caudalanteriorcingulate).

In that case, one expert said that ; the closest to what you want is probably $FREESURFER_HOME/subjects/fsaverage/surf/lh.aparc.label. You can open it with a text editor. Then you should cross-check with $FREESURFER_HOME/subjects/fsaverage/surf/lh.aparc.annot for the actual labels of those vertices. The .annot file can be opened in Matlab with the read_annotation command from FreeSurfer.

What do you recommend? Ece

---

Gönderen: Bruce Fischl fischl@nmr.mgh.harvard.edu adına freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu Gönderildi: 5 Kasım 2018 Pazartesi 20:18 Kime: Freesurfer support list Konu: Re: [Freesurfer] İlt: Desikan Atlas in volume space Hi Ece

for a given subject the Desikan parcellation is sampled into the volume alread in the file aparc+aseg.mgz in the subject's mri dir. Is that what you are looking for?

cheers Bruce

On Mon, 5 Nov 2018, ece ulug wrote:

...

    External Email - Use Caution

Dear Experts,

I am very beginner in Freesurfer, and I want to use 'read_annotation' function but i don't know what is the next step. I added the Matlab screenshoot.

Additionally; 'read_curv' function don't work in Matlab. I added it.

Thanks in advance

Ece