On 01/30/2009 08:44 PM, Koene Van Dijk wrote:
> One correction on my text below:
> I chose fslview: Tools>Toolbars>"JHU White-Matter Tractography Atlas" and
> then selected "Cingulum (cingulate gyrus) R". I would like to have a single
> nifti file of that area.
> Thanks for any help/advice,
> On Fri, 30 Jan 2009 20:29:41 +0000, Koene Van Dijk
> <[log in to unmask]> wrote:
>> about fslview 3.0:
>> I'm looking for a 3D nifti file of an anatomical area in atlas space. I have
>> selected the structural atlas (fslview:Tools>Toolbars>Harvard-Oxford
>> Subcortical Structural Atlas) and choose my area of interest: "Cingulum
>> (cingulate gyrus) R". I see it on my screen but I'd like to have a copy of
>> the 3D file, preferably in nifti, if it exists.
>> Can anyone tell me where I can find it, if it exists? I've browsed the
>> subdirs in the fsl directory but without luck.
>> Thanks in advance,
The "+" button in the dialog box, where you selected your area of
interest, clones that part of the atlas as a new image in your session's
list of overlays. Once you have it cloned you can simply save, "Save
as..." it as you can any layer. This image is a single volume (integers
0-100% - confidence in the reported label) so you could then binarise
the image at your chosen threshold using fslmaths.
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