Dear Ping,
> Great, I am going to try soon, I want to creat a 1mm template
> (MNI152_elderly_T1_1mm), should be the same procedures as long as I use
> MNI152_T1_1mm instead in the first step? Let me know if I understand
> correctly.
you could use the 1mm template throughout the procedure. However, the 1mm
has unnecessarily high resolution given that with fnirt you will typically
use a warp-resolution of no less than 6-8mm (10mm being the default).
Therefore I would recommend using the 2mm MNI template to start things,
and then keep the whole process at 2mm until your procedure has converged.
Once it has converged, if you still want a 1mm template, you can use the
last warp-field for each subject and run applywarp again, this time
specifying the MNI152 1mm template as --ref. That means all your subjects
will be warped into the same space as before (your elderly MNI space) but
now on a 1mm grid. These can then be averaged to give you your 1mm
template.
Good luck Jesper
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