Dear SPMers,
I would like to use John's reorient.m script to do change the orientation of images. I acquire brains in
a tilted oblique orientation and would like to use AFNI to automatically get them approximately in
talairach space. AFNI outputs the parameters it uses as a 3x4 matrix of translations, rotations and
scales (the same params that can be specified using Reorient images in the GUI).
I would like to use reorient.m to apply these parameters and create a new mat file (or adjust the old
one) without interpolating and writing new files. I'm not sure which of the params in reorient.m
would allow me to do this. If it's not possible, is there a command line version or function for
reorient images that I can modify for this purpose? The idea is to create a mat file that can then be
combined with DARTEL transformations so I would only have to interpolate once.
Thanks so much.
Best,
Mike Yassa
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