In the FSL tools the Harvard-Oxford atlas might be most suitable.
If you want to use individual definitions from our probabilistic maps
($FSLDIR/data/atlases), e.g., to create masks, then split the prob
images using "fslsplit -t" and threshold the resulting volumes to
binarise them creating, for example, an 80% thalamus mask.
Each prob file is a 4d image containing one volume per structure of
percentage values [0-100%] representing the confidence in the structures
definition, see the accompanying XML file to find out which volume index
corresponds to which structure.
On 02/06/2009 09:54 PM, siamak wrote:
> I am using the MNI subcortical mask in some part of my processing pipeline. I
> also need to use each MNI subcortical substructure mask including
> hippocampus, caudate, thalamus and so on. How can I download an MNI atlas
> composing of subcortical structures.
--
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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