Dear FreeSurfer people,
I have got a very basic question. I would like to (or better: have to)
do some manual tracing on my data.
For this, I want my brains to be motion- and nu-corrected and in
Talairach.
Therefore, I apply the -autorecon1 step to my dataset.
I always assumed that the T1.mgz output is in Talairach space, but 1)
when I compare it to the original scan and 2) when I look at the
processing flow in the ReconAllDevTable, I doubt this.
Do I still need to apply the talairach.xfm to the T1.mgz or something
like that?
1) Could you please let me know whether the T1.mgz is indeed the scan
I need (thus: is T1.mgz the result of all the autorecon1-steps, accept
for skullstripping)?
2) If not: how do I process my scans so that they are motion- and nu-
corrected and in Talairach space?
THANK YOU!
Marieke
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