Sophie,
Probably the easiest way to map functional data is to map the data in
Caret5 using Attributes:Metric:Map Functional Volume to Metric.
Steps:
* Load your fiducial surface, functional volume, and anatomical volume
into Caret5.
* Your fiducial surface should have its origin at the anterior
commissure.
* Switch to a volume display and verify that the functional volume
properly overlays the anatomical volume.
* On the Display Control's Overlay/Underlay - Volume panel, check the
"Show Surface Outline" check box in the Miscellaneous section. This
should show a green outline of the fiducial surface on the volume. If
it does not or the green outline does not overlay the cortex in the
anatomical volume, either your surface is not AC centered or the
volumes stereotaxic coordinates are incorrect.
* Select Attributes:Metric:Map Functional Volume to Metric.
* In the Map Functional Volume To Surface Dialog make sure your
fiducial surface is selected. Use the dialogs controls to select your
functional volume.
* Press the Apply button.
* Use the Display Control Dialog Overlay/Underlay Surface panel to set
the primary overlay to Metric and make sure the newest metric column is
selected. You should now see your functional data on the surface.
There is also a short section on mapping functional data in the Caret
5.1 User's Manual and Tutorial.
----------------------------------------------------------
John Harwell
[EMAIL PROTECTED]
314-362-3467
Department of Anatomy and Neurobiology
Washington University School of Medicine
660 S. Euclid Ave. Box 8108
St. Louis, MO 63110 USA
On Jul 29, 2004, at 11:30 AM, Sophie Riches wrote:
Hello again! Sorry to keep bothering you but i keep getting foiled!
I have aligned a set of EPI fMRI scans to a structural T1 scan in SPM
99 before processing the fMRI data.
The output from SPM looks okay - the activation is where I expected so
I think the orientation is ok and in normal SPM orientation. When
overlaid on slices it appears to be nicely aligned.
However when I map the fMRI to the reconsrtucted surface (from
SureFit) it is quite clearly not aligned at all. I am using the
map_frmi program on windows and have put in the fidiucial file as the
mapping surface,
Have I missed out a step? I have used the parameter file for the
surface and it has set the origin automatically .(although I thought
the origin of a surface made in SureFit would be 0,0,0 so I tried that
and still get it misaligned.) It certainly looks as though it is in
the right orientation but is not centred on the same origin.
Any ideas?
Sophei
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