Lars,
The wiki page describing atlas-building is a work-in-progress, so it's not yet a how-to guide, but the essential information exists. See:
https://surfer.nmr.mgh.harvard.edu/fswiki/CorticalParcellation
If you decide to try to construct your own atlas, it would be helpful to email me particulars on trouble-spots, so that the wiki page can be improved.
Nick
On Thu, 2005-12-08 at 08:38 -0500, Bruce Fischl wrote:
Hi Lars,
I guess in principal you could use it via the standard route for spherical morphing if you segmented it yourself. In general we haven't done a lot with cerebellum as you need something like .3 mm voxels in plane to resolve the majority of the foliations. Could someone point Lars at the wiki page describing how to build your own atlas? Analyze would probably be okay if you keep the orientation info in an associate .mat file (as SPM does)
cheers, Bruce
On Thu, 8 Dec 2005, Lars M. Rimol wrote:
Hi, We have manual tracings of the cerebellum (approx. 100 brains), which were done in the Brains2 software. Could these tracings be used to construct an atlas for use with FreeSurfer? If so, which file format would be most convenient? Analyze?
(The data have been described in: Okugawa G, Sedvall G, Agartz I. Smaller cerebellar vermis but not hemisphere volumes in chronic schizophrenia. Am J Psychiatry, 2003; 160:1614-7)
-- yours, Lars M. Rimol
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