Hi David,

there are different sets of priors we use. One is the .gca atlas, used for volume segmentation. You can use mri_ca_train to rebuild these if you really want to, although ideally you would have complete segmentations (including e.g. thalamus, caudate etc...). Then there are the cortical ones used for the aparc, that you seem to already have a handle on.

cheers, Bruce

On Mon, 25 Feb 2008, David Kahn wrote:

Hello,

I'm a beginning FS user, and I've been working on segmenting some atypical brains. A colleague has worked out grey/white/csf tissue priors for these subjects and I wanted to insert these into freesurfer before segmentation and parcellation. Does anyone know how freesurfer stores tissue priors and how to change them?

Also, I intend upon creating a new cortical parcellation atlas as well (using mris_ca_train and _label). Is swapping out the priors an unnecessary step if I am already prepared to supply the atlas?

Thanks for any help, and forgive my relative inexperience with FS.

David

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