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 >>> email@example.com >>> http://brainvis.wustl.edu/mailman/listinfo/caret-users >> >> >> _______________________________________________ >> caret-users mailing list >> firstname.lastname@example.org >> http://brainvis.wustl.edu/mailman/listinfo/caret-users >> >> > > _______________________________________________ > caret-users mailing list > email@example.com > http://brainvis.wustl.edu/mailman/listinfo/caret-users _______________________________________________ caret-users mailing list firstname.lastname@example.org http://brainvis.wustl.edu/mailman/listinfo/caret-users