Hi Dr. Spielberg,
thank you very much for your help, your time and your script! I really appreciate it.
In this case, I will rather follow your advice by using the FSL processing routines, so I can use the segmentation script after completing the registration in FSL. Thank you.

Unfortunately, I have another – hopefully last – question: Our data are in RAS orientation (right = right), but in your tutorial, you state that the data must be in LAS orientation. Do I need to reverse the data?

Best, Hannah