This is a bit tricky as you need a volume as a template that has the
dimensions/resolution you want. One fast and dirty way to do it is to
upsample the orig to 0.5mm, eg
mri_convert --upsample 2 orig.mgz orig.us2.mgz
You can then run
mri_vol2vol --mov T2.nii.gz --lta reg.lta --targ orig.us2.mgz
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If you are using high resolution T1w and T2w images with FreeSurfer, you might
just run the HCP Pipelines that depend upon such data and take care of all of
this. Alternatively, you can see how FreeSurfer is called by the HCP Pipelines:
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Hi all,
Thanks again for all the help so far with getting my data registered and
surfaces extracted. I have one further issue that I'm hoping to get help with.
I've used bbregister to align my T2 scan with the surfaces from my T1 scan.
However, the
