Hi Freesurfer community,

 

I have an issue in adding a surface label to an annot file.

I had a manually drawn  .nii mask in native space for each subject  which I have used mri_vol2surf to create a surface overlay and then mri_vol2label (with the surf argument) to create a surface label for the mask.

 

I also have a custom parcellation of fsaverage which I have mapped to individual native space using mri_surf2surf.

 

My issue is I want to combine the outputted binarymask.label file with the custom parcellation. My understanding is that I would need to combine the binarymask.label with the custom.parc.annot file. In order to do this wopuld I break down the annot file with mri_annot2label and then rebuild including the new binarymask.label?

 

Could I also just add another row to the LUT from the custom.parc.annot file to allow this?

 

And finally, how do I deal with the fact that the binarymask.label will overlap with other labels? Ideally I need to force the overwrite of vertex labels so that the binarymask.label is prioritised?

 

BW

James