Hi, Thanks for the advice Donna. That is, in fact, what we are trying to do. However, I am realizing the source of my problems is at a much more basic level, so I have abandoned the talairached data and am working with individual data.
Right now, I'm attempting to map some individual data onto the individual surface and am running into some problems. I wrote the functional data into the original anatomical's grid as per http://brainmap.wustl.edu/help/mapper.html#afniwriteanat. I then proceeded to mimic the directions at http://brainmap.wustl.edu/help/map_individual.html Using my functional data in anatomical grid, the original anatomical to which it was mapped, and a surface I generated for this same subject using 4 anatomicals (including the aforementioned "original" one), registered/averaged/uniformized/resampled/converted to MINC in AFNI. The functional data maps fine onto the original anatomical, but not onto the surface. I think there may be some alignment issues between the original anatomical and the processed one used for the segmentation/surface. Can you recommend something to fix this? Thanks so much, Sarah On 12/6/07 10:32 AM, "Donna Dierker" <[EMAIL PROTECTED]> wrote: > Hi Sarah, > > This is not something we do every day -- map group results to an > individual's surface. Maybe some context might clarify. > > But let me illustrate an example where something like this might make > sense. Suppose I have functional group differences, and I want to > investigate whether anatomical difference might underly the functional > differences. I can imagine doing something like this: > > * Use some sort of volume-based registration (VBR) to warp the > individual's anatomical volume into the same stereotaxic space as my > functional group results. Spend a fair amount of time fussing about > what VBR method to use (e.g., linear vs nonlinear). It might be > reasonable to use the same VBR method used to generate the functional > group results, but give this step some thought before charging ahead. > > * Use caret_command or AFNI's Vecwarp to apply the resulting affine > transform, if a linear VBR method was used, to your individual's > surface, so the surface is now in atlas space. (If a nonlinear method > is used, then you'll need to apply the deformation map using alternate > methods. The SPM links here give you a feel for how that works: > > http://brainvis.wustl.edu/help/pals_volume_normalization > > * Map the functional results onto the atlas-space surface. > > * Perhaps smooth/threshold the results, using Caret's Attributes: > Metric: Clustering and Smoothing and/or Surface: ROI features. > > * Perhaps even use Surface: ROI to threshold the map and convert it to > Paint, so that now I have a ROI on the individual's surface; then, > Attributes: Paint: convert paint column to paint volume to project the > ROI on the individual's surface to the atlas-warped individual's > anatomy. I might use this as a starter segmentation, perhaps clean it > up, perhaps not, for the purpose of applying some sort of volumetric > morphometric method. > > This may be nothing like what you want to do, but it's the kind of > context under which it might make sense to map group fMRI onto > individual surfaces. > > Donna > > On 12/06/2007 09:11 AM, Sarah Hillenbrand wrote: >> I have functional group data in Talairach space that I need mapped to an >> individual surface. I'm having trouble with this and am not sure at which >> step in the process I may have gone astray. >> >> What are the correct steps to follow here? >> >> Much obliged, >> Sarah >> >> _______________________________________________ >> caret-users mailing list >> caret-users@brainvis.wustl.edu >> http://pulvinar.wustl.edu/mailman/listinfo/caret-users >> >> > > _______________________________________________ > caret-users mailing list > caret-users@brainvis.wustl.edu > http://pulvinar.wustl.edu/mailman/listinfo/caret-users
