12 Jul
2010
12 Jul
'10
2:23 p.m.
The areas near subcortical structures are not included in thickness estimates. If you load your subject in tksurfer and load the aparc.annot you will see a section on the medial side called "unknown". If the regions you are concerned about fall within here, then you do not have to worry about it as it will not be included in your thickness stats.
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On Mon, 12 Jul 2010, xuemei lei wrote:
> Hi All
> I recently started with FreeSurfer, and I am not sure about the pial
> and wm surface in the subcortical regions( eg. Hippocampus and
> amygdala,Medial temporal lobe). I have attatched the figures. Are these pial
> and wm surfaces acceptable? I have no ideas about the criterion and the
> right surface in this regions reconstracted by Freesurfer.
> Please let me know!
> thank you very much!
>
>