Hi Lars,
definitely trust your eyes more than the objective function! If the xforms
are reasonable everything should work fine, but if you care about talairach
averaging or coords for reporting you should adjust them.
cheers,
Bruce
On Fri, 9 Dec 2005, Lars M. Rimol wrote:
Hi,
We have 15 o
Hi Lars,
You should be able to just move on with -autorecon2 as normal. The only
need to re-do anything would be if your poor talairach caused some other
step to be wrong (i.e., the skull strip failed or the normalization failed
because the talairach was wrong). If those are fine, then continue
Hi,We have 15 out of 16 data sets with Final Objective Function value 0.1. We also find some deviations from the talairach (or MNI) volume when we visually inspect the images (fixed vs. movable) in tkregister2. But we are unsure how large the deviations must be for it to be a problem, so we rely on
depends why you needed to improve the talairach. If it's just for
reporting purposes and the filling/intensity normalization all worked
fine then you don't need to.
cheers,
Bruce
On Thu, 8 Dec 2005, Lars M. Rimol wrote:
Hi,
After having redone mri_convert with an edited brain.mgz as input fil
Hi,
After having redone mri_convert with an edited brain.mgz as input file, in order to improve the talairach transform, and after having changed the file names (brain.xfm -> talairach.xfm), should we then go to autorecon2? (or do we need to re-run some more scripts from autorecon1?)
-- yours,
