Would it be possible to send me the surface and the volume that do not
align in freeview?
Thanks,
Ruopeng
On 08/13/2015 11:46 AM, Roan LaPlante wrote:
Hello,
I am trying to use mris_compute_lgi to create the smoothed pial
surface with no gyri, and then use this surface for a different
purpose than the LGI.
To do this I simply modified a version of the mris_compute_lgi script
to run up until the creation of the *h.pial-outer-smoothed surfaces.
When examining the surface in tkmedit it appears to align with the
pial surface correctly. But I tried to open the surfaces in freeview
and saw that the surface coordinates do not match the volume. At a
glance the misalignment may only be a translation in the A/P direction.
Is there a reason why the coordinates in this surface differ from the
subject RAS space and what transformation is tkmedit applying to align
them?
thanks,
--
Roan LaPlante
Athinoula A. Martinos Center for Biomedical Imaging
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