Hi Kasper

yes, I think that is correct Bruce On Sat, 24 Oct 2015, Kasper Jessen wrote:

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