I just don't think there is an easy way to do this in Caret right now, but I know that won't stop you. ;-)
You might try something like this: map surf paint to vol using white, specifying outer thickness >0 map surf paint to vol using pial, specifying inner thickness >0 union these volumes and fill cavities subtract the result from the Freesurfer ribbon volume min the resulting difference at 0 On Dec 31, 2011, at 11:43 AM, Colin Reveley wrote: > Hi - (happy new year) > > Caret has a nice feature that lets you drop paints from a surface into a > volume. > > but one thing is that all it really allows is for one to specifiy a distance > above and below the suface. So, it does not allow one to fill the gray matter > of a volume with paint accurately. > > But, I can fill the gray or white matter accurately by having a pial or white > surface (from freesurfer), turning them into segmentations and subtracting > one from the other. > > Or, wisely avoiding freesurfer, I could make a segmentation of the entire > volume (threshold to segmentation), shrink a midthickness surface made with > surefit so it pretty much fits the WM and subtract a segmentation of that > from the volume segmentation. > > So, is there a way, could there be a way, might there one day be a way of > moving paint data from surface to volume using a segmentation (derived from > wherever) as a template, so that the entire cortical thickness is labelled by > the paint volume, and accounting for thickness variation? > > this would be pretty handy. I could see it helping lots of things (for > example the scabalebrainatlas). > > since I have a mask/segmentation of gray matter maybe there's a trick that I > could use to accomplish this right now? > > All I can think of is to use the white, mid and pial surfaces I have (and > maybe 2 more surfaces, the average of white and mid and of pial and mid), > make paint volumes and OR them all togther. > > best for 2012. > _______________________________________________ > caret-users mailing list > [email protected] > http://brainvis.wustl.edu/mailman/listinfo/caret-users _______________________________________________ caret-users mailing list [email protected] http://brainvis.wustl.edu/mailman/listinfo/caret-users
