Hi Joost, try using mri_surf2surf, something like
mri_surf2surf --sval-xyz lh.pial --reg register.dat --tval lh.pial.native --tval-xyz --hemi lh --subject subject
The register.dat you can get from tkregister2 --mov orig.mgz --targ rawavg.mgz --regheader --no-edit --reg register.dat
doug
On 4/25/11 10:34 AM, j janssen wrote:
Hi,
FS version 4.5
- goal: to transfer the ?h.pial to native ('pre-conformed') space.
thus to the space of the image _before_ any FS processing.
- what we have done so far:
- if we convert the T1.mgz (from the FS mri-dir, mri_convert T1.mgz
T1.nii) to nifti it coincides perfectly with the native space image. 2) if we then overlay the ?h.pial over the T1.nii it does _not_ match, i.e. it looks like mri_convert includes a translation that shifts the surface with respect to the volume.
question: how can we achieve our goal, i.e. get the surface in native space (a perfect overlap with T1.nii)?
thanks, -joost _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer