What software was used to reconstruct the surface?
With freesurfer, there is an offset between the orig.mgz and the surface. And
depending on many factors, you might have to flip/rotate the surface to be in
the same orientation as the volume (or bring the volume to the surface).
See this thread:
http://www.mail-archive.com/caret-users%40brainvis.wustl.edu/msg02081.html
Also see the Check Alignment between Normalized Volume and Surface section
here:
http://brainvis.wustl.edu/help/pals_volume_normalization/spm5_normalization_pals.html
Examining the surface contour overlaid on the volum in volume view All is often
very enlightening.
On Aug 11, 2015, at 4:42 AM, j...@nbrc.ac.in wrote:
yes, ours is an individual s surface reconstruction, and so we checked the
registration in spm8( using anatomical image used for reconstruction and
the functional image volumes used for mapping), where the volumes are
coregistered properly, but shows anomaly in caret.
thank you
This almost always is because the functional volume is not
stereotactically registered to the anatomical volume used to generate the
fiducial surface. Is this an atlas surface (e.g., one of the PALS mean
midthickness surfaces), or is it an individual's surface reconstruction?
If atlas, this could happen if you were trying to map SPM functional data
to the AFNI mid thickness surface, for example, because there are
noticeable differences between those stereotaxic spaces.
If individual, make sure the functional volume is in register with the
anatomical volume used to generate the surface.
On Aug 10, 2015, at 1:40 AM, j...@nbrc.ac.in wrote:
Hi,
when i map the functional data onto caret fiducial surface, it appears
that the mapping is shifted in rostrocaudal axis, caudally, by about 2
-3 mm. anyone has idea what could be possibly wrong here?
thanks,
john
___
caret-users mailing list
caret-users@brainvis.wustl.edu
http://brainvis.wustl.edu/mailman/listinfo/caret-users
___
caret-users mailing list
caret-users@brainvis.wustl.edu
http://brainvis.wustl.edu/mailman/listinfo/caret-users
___
caret-users mailing list
caret-users@brainvis.wustl.edu
http://brainvis.wustl.edu/mailman/listinfo/caret-users
___
caret-users mailing list
caret-users@brainvis.wustl.edu
http://brainvis.wustl.edu/mailman/listinfo/caret-users
