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Hi Daniel,
It's been a while since I looked into this, but I think you'll need to use
`lta_convert` to convert your lta to xfm format, then use
`mri_add_xform_to_header` to overwrite the header of your phase map.
You might have to extract the current transform from your phase map, apply the
robust_regsiter transformation then write the resulting xfm back to your phase
map file.
There is also mri_convert which has an `--apply_transform` flag, but I think
that resamples the data.
-Paul
________________________________________
From: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Balentine, Daniel Grimm
<dbalent...@mgh.harvard.edu>
Sent: Wednesday, May 3, 2023 4:06 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: [Freesurfer] apply an existing linear transform to a GRE phase map
External Email - Use Caution
Hello FreeSurfer Developers,
I hope you are well. I’m attempting to apply an .lta file generated by
mri_robust register. The files I want to apply the transform on are GRE phase
maps, so I don’t want to do any resampling.
I was looking around mri_vol2vol, but all the examples seem to involve
resampling to a target scan. How would I go about this if I simple want to
apply this linear transform on the phase maps (nii) in freesurfer?
1. Freesurfer version 7.3.0
2. Platform: CentOS Version 7
Sincerely,
Daniel Balentine
Data Analyst
Athinoula A Martinos Center for Biomedical Imaging
Massachusetts General Hospital
149 - 13th Street
Charlestown, MA 02129
dbalent...@mgh.harvard.edu
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