Dale, In situations like this, I get the anatomical template image used as the atlas target for spatial normalization. Flirt and fnirt both use the avg152T1, but different versions. Load your atlas target in Caret, and overlay the surface outline of the PALS mean surface used as a mapping substrate. Then load your precuneus cluster volume and overlay that over all. You might need help at one or more of these steps, but this is how you will get to the bottom of the missing cluster.
If you used fnirt to get stuff on avg152, then there's a decent chance your cluster won't intersect the mean PALS surface well. Seeing the intersection of the anatomical volume, mean surface, and functional volume will tell us how to fix the problem. Donna On Sep 15, 2012, at 12:18 PM, Ping-Hui Chiu wrote: > Dear Caret experts, > > I've been using Caret v5.65 without any problems but today I found that the > attached contrast can't be seen on the PALS_B12 surface. > > This contrast shows a precuneus cluster of intensity 0.999 (33 voxels > surrounding 4/-72/46 in the MNI152 space). It can be seen just fine by > FSLView & Mango in the volume space. However, it disappeared after surface > projection using the FLIRT space and various mapping algorithms, such as > METRIC_ENCLOSING_VOXEL, METRIC_MAXIMUM_VOXEL with neighbor box size=0, etc. > > It doesn't look like a threshold problem because I still can't see it with a > 0 threshold. What may be wrong here? Any hints will surely be helpful! > > Thanks! > Dale > <precuneus.nii.gz>_______________________________________________ > 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
