Re: [Freesurfer] Recon command with T1 and T2

Hi arkadiy

the -3T flag is used if your input data is acquired with a 3T scanner, not if you have multiple inputs. And yes, you can combine it with -T2pial

cheers Bruce On Thu, 13 Dec 2018, Maksimovskiy, Arkadiy wrote:

Hi Doug,

I have a follow up question, if you don’t mind clarifying.

My goal is to optimize the reconstruction and increase its accuracy. Would you mind confirming if the flag selection is appropriate for the following scenarios:

Multiple T1 scans and one T2 scan: Use the 3T flag and the -T2pial flag  (is combining them allowed?).

One T1 scan and one T2 scan: Use only the -T2pial flag .

I would love to hear if these are correct.

Thank you for your help,

arkadiy