Hi Freesurfer Developers,

I would like to ask for your expertise in the following problem I encountered:

I want to create subject specific labels based on a label I created in fsaverage. The transformation needs to be based on Talairach intermediate registration, since my label was drawn based on Talairach coordinates.

I ran the following command:

mri_label2label --srclabel test.label --srcsubject fsaverage --trglabel lh.test2.label --trgsubject

subj222 --regmethod volume

The problem is that the output label is scattered and all around the place when I look at it in tksurfer - see the image attached (lh.regmethod_volume.tif).

When I did the registration based on surface, it worked fine (see the image also attached - lh.regmethod_volume.tif), however, it resulted in 0-4 mm misalignment when I looked at the Talairach coordinates of the label borders. I guess it is due to the surface registration that optimises the surfaces to be aligned, not the Talairach coordinates.

Please find some information attached in case it is any help – content of files, output etc.

Here is my freesurfer version: freesurfer-Darwin-lion-stable-pub-v5.3.0

Your help would be really appreciated.

Thanks and best,

Agoston