Erin,
I hope you found the suggestions from John and Donna to be helpful
(or at least understandable).
Depending on your specific needs, there is another strategy that may
prove useful for you. It involves simultaneously loading the left
and right hemispheres for the average PALS fiducial surfaces
(possible because they have identical node numbers), then viewing
each one in a separate Caret window.
I have generated a suitable both-hemisphere PALS dataset, along with
an accompanying scene that gets everything set up for initial
viewing, and uploaded it to SumsDB. It is now publicly available and
can be visualized using WebCaret.
Go to http://sumsdb.wustl.edu/sums/archivelist.do?
archive_id=6436012. Press the 'brain' icon to the left of PALS_AFNI-
TLRC_AvgFIDUCIALS_sMRI.73730.spec to launch WebCaret.
The first (default) scene will show a dorsal view of the average
fiducial (in AFNI-Talairach space). The second scene switches to the
right hemisphere. The 3rd and 4th scenes show the same fiducial
surfaces combined with the average stuctural MRI volume. The 5th
scene shows the left and right hemispheres simultaneously in separate
windows. If you want to see contours of each hemisphere in the
volume slice, you can see one at a time and switch between them using
the 'Surface Miscellaneous: Active Fiducial' pulldown menu in the
Display Control window.
While this strategy won't let you view both hemispheres
simultaneously in a SINGLE window, it has some advantages/convenience
over what John described in the preceding email.
BEWARE, however, that if you start using this strategy routinely for
your analyses, you will very likely discover that special care is
needed to insure that the left and right hemisphere sulcal depth maps
are displayed correctly on the left and right hemisphere surfaces.
The scenes are preconfigured so that you don't have to think about
this. Our tutorials do not yet cover this new, advanced capability,
so if you experience problems let us know and we'll draft ad hoc
explanatory comments.
David Van Essen
On Dec 16, 2005, at 11:02 AM, John Harwell wrote:
Erin,
Caret is designed to work with a single hemisphere. We have had some
discussions about loading and viewing both hemispheres simultaneously
but I do not know if that will ever happen. In the meantime the
following procedure should allow you to view a left and right
hemisphere and foci simultaneously.
* Load a left hemisphere into Caret.
* From the file menu, select "Export File". set the File Type to
"VTK Surface File". At the bottom of the dialog, set "Export
Selections" to "Fiducial...". Enter a name like left_hemisphere.vtk
and save the file.
* Quit Caret.
* Load a right hemisphere into Caret.
* Choose Open Data File from the File Menu. Set the File Type to
"VTK Model File". Select and load the VTK file that you saved a
previous step. You should now see both hemispheres.
* Enter/load Foci for both hemispheres.
* Save the foci file using File Menu: Save Data File. On the save
data file dialog set the File Type to "Foci Files (*.foci)" and make
sure the selection "Foci Associated With Surface Type" (at bottom of
Save Data File dialog) is set to Fiducial.
* When you start Caret in the future both the foci and VTK model file
should be listed in your spec file.
----------------------------------------------------------
John Harwell
[EMAIL PROTECTED]
314-362-3467
