You can try using caret, it works quite good.
Cheers.
D.
On Mon, 2008-11-17 at 11:03 +0000, Dave Flitney wrote:
> On 10 Nov 2008, at 04:27, SUBSCRIBE FSL Susan wrote:
>
> > Hi -
> >
> > I am a new FSL user, converting over from using SPM99 many years
> > ago. I was
> > wondering if there's a way to 3D render the thresh_zstat from one of
> > my
> > higher level analyses to a structural image (e.g., bg_image).
> >
> > I tried opening bg_image in FSLview, then adding the zstat file, and
> > using
> > 3D Viewer. But that gave me a solid brain with no gyral/sulcal
> > anatomy, and
>
> Use the threshold control (next to the "Clipping" check box) to adjust
> the level until you see a nice pial surface representation.
>
> > no activation blobs. I tried changing the opacity of the structural
> > brain,
> > to find that showed me the opposite side of the brain, rather than
> > internal
> > anatomy (and still no functional activation).
>
> To see the activations you will need to cut away part of the brain to
> reveal them. Turn on clipping then press "b" to toggle on the control
> that allows you to adjust the position and extent of the clipping box.
> Using the control points you should be able to carve away a section
> revealing the activations. Look at the online help for the description
> of the 3D controls: http://www.fmrib.ox.ac.uk/fsl/fslview/3D-vtkkbd.html
>
> > I am trying to create an image similar to SPM, with activation
> > rendered on
> > the surface of the brain.
>
> I'm afraid we don't have an equivalent view. It has been at the back
> of my mind to add a function to project the nearby activation
> intensities onto the surface but we haven't tried to implement that yet.
>
> > I would appreciate any help I can get. Thank you!
> >
>
> Cheers, Dave
>
> --
> Dave Flitney, IT Manager
> Oxford Centre for Functional MRI of the Brain
> E:[log in to unmask] W:+44-1865-222713 F:+44-1865-222717
> URL: http://www.fmrib.ox.ac.uk/~flitney
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