Hi Octavian
the coordinate systems used by FreeSurfer are documented here:
https://surfer.nmr.mgh.harvard.edu/fswiki/CoordinateSystems?highlight=%28systems%29%7C%28coordinate%29
I believe that the ?h.dpial.ribbon.mgz is one our "conformed" coordinate
system, but Doug would know best.
cheers
Bruce
On
Sat, 3 Mar
2012, octavian lie wrote:
Dear All,
I am using a pipeline for electrode coregistration including freesurfer for
pial surface generation, run by default recon-all -all and mris_volmask with
--save_distance option. The FS files ?h.dpial.ribbon.mgz are the sole FS
output. They are converted in the pipeline to nii.gz files using the
mri_convert with no specific flags. Question, what coordinate system is used
in the converted nii.gz file: a native/scan system, FS system, talairach
system (after several recon-all steps of talairach transformation), or NIFTI
system? Is there a way to call a command to confirm the exact system used?
Thank you,
Octavian.
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