Dear freesurfer group

I have edited my subjects with both control points and brainmask edits. For the re-processing both my CPs and brainmask edits, at the same time i used the following command:

  • recon-all -base Subject_base -tp Tp1 -tp Tp2 -autorecon2 -autorecon3 -3T


Is this a correct way of doing it? 

I have become in doubt since i have noticed that some use -autorecon2-cp or -autorecon2-pial. However, i have only used -autorecon2-cp if i ONLY have made control points. 

But since i have done both CPs and brianmask edits i used -autorecon2 -autorecon3.

Best regards,
Kasper
Phd Student



--
Kasper Jessen, 
MD, PhD student
Center for neuropsychiatric Schizophrenia Research (CNSR)
Mental Health Centre Glostrup
Nordre Ringvej 29-67
2600 Glostrup
Tlf.: 24430136
E-mail: kasper_j@cnsr.dk eller kasper.jessen@regionh.dk