Hi Graham,
yes, they are all in the same coordinate system. mri_ca_register takes a
transform to initialize the nonlinear atlas alignment, but everything is
in the same voxel space at the end of the day.
cheers,
Bruce
On Tue, 12 Sep 2006, Graham
Wideman wrote:
Folks:
I am (still!) trying to get traction on some aspects of the current FS
coordinate system(s).
In the recon-all pipeline, am I right in assuming that from orig.mgz all the
way through to aseg.mgz and then on to brain.mgz, wm.mgz and so on, that
there's NO resampling to a new coordinate system (eg: the specific brain's
data doesn't get resampled to rotate or talairach it)?
Ie: if you overlay, for example, wm.mgz's data onto orig.mgz, it'll align
properly? (Ie: overlay the raw voxel data, unmolested by any clever viewer
transforms...)
I *think* I'm right on this, but it's hard to be sure, because for example,
mri_ca_normalize's docs say that it takes a gca transform file as input. But
that *might* be so that mri_ca_normalize can resample some other standard
file to match the specific brainmask.mgz file.
<scratching of head>
Graham
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