I am a PhD student from Birkbeck University and I am trying to segment some structural images of infants data.

After the classical segmentation done with the ‘-recon all’ function, I am stuck with two issues:

1. How can I add the CSF, the skull and the scalp in my model? I know that with FS you can get just WM and GM.

2. How can I convert the RAS coordinates to MNI ones?

I have been trying to look at these topics on line and on the FreeSurfer website, but I haven’t find anything useful so far.

Many thanks in advance for your help!

Best Regards

Chiara