is your T2 in register with the T1? If not, you need to run bbregister to
align them. If so, you can run something like
mri_convert -rt nearest -rl T2.mgz T1.mgz T1.reg_to_T2.mgz
cheers
Bruce
p.s. you can also sample the T2 onto the surface with mri_vol2surf (once
it is registered) and do the analysis on the surface, which is usually a
better idea, if it is cortex you are interested in.
On Tue, 23 Dec 2014, Ben Eliezer, Noam wrote:
Hi —
I wish to collect statistics (mean and standard-deviation) of T2 maps that were
generated externally according to aparc+aseg.mgz segmentation.
The maps are in units of [ms] and are currently in MATLAB format.
I’ve tried exporting aparc+aseg data to nifti file and match them, but the
exported data does not match (in orientation and aspect ratio) to my T2 map.
Do you have any suggestion how to collect these statistics?
Thanks in advance,
— Noam
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