On Sat, Mar 9, 2019 at 5:47 PM < stdp82@virgilio.it> wrote:

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I have run:

mri_surf2surf --srcsubject fsaverage5 --trgsubject subj--hemi rh --sval-annot /Applications/freesurfer/1000subjects_reference/Yeo_JNeurophysiol11_SplitLabels/fsaverage5/label/rh.Yeo2011_17Networks_N1000.annot --tval $SUBJECTS_DIR/subj/label/rh.Yeo2011_17Networks_N1000

to check the output

tksurfer subj rh inflated -annot $SUBJECTS_DIR/subj/label/rh.Yeo2011_17Networks_N1000.annot

My concern is here:

mri_aparc2aseg --s subj --o subj/mri/Yeo_17Net.mgz --annot Yeo2011_17Networks_N1000 --annot-table /Applications/freesurfer/1000subjects_reference/Yeo_JNeurophysiol11_SplitLabels/MNI152/17Networks_ColorLUT_freeview.txt --sval-annot yeoData_fsaverage5/rh.Yeo2011_17Networks_N1000.split_components.annot

tkmeditfv fsaverage orig.mgz -ov /Applications/freesurfer/subjects/subject_prova/Yeo_17Net.mgz

Yeo_17Net.mgz is empty.

Stefano

Il 7 marzo 2019 alle 23.57 "Greve, Douglas N.,Ph.D." <DGREVE@mgh.harvard.edu> ha scritto:

You have to convert the annotation to a volume using mri_aparc2aseg
(look at recon-all.log for an example, but note that you'll need to
specify the output so that it does not overwrite). You'll then need to
look in the output segmentation and see what the segmentation ids are

On 3/7/19 4:13 PM, stdp82@virgilio.it wrote:
>

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Hi list,

I'd like to use the regions included in Yeo 17 networks
(https://github.com/ThomasYeoLab/CBIG/tree/master/stable_projects/brain_parcellation/Yeo2011_fcMRI_clustering).

in FS-FAST.

Which is the command line to be used to create a segmentation in
$SUBJECTS_DIR/$subject/mri in the same format as aseg.mgz? (I'd like
to use it to run fcseed-config, specify -seg yourseg.mgz -segid).

Thanks

Stefano

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