Hi Frederick,
yes, pretty much, although you have to be careful for failures in the topology correction as well. I'm not sure we output total gray and white matter volumes - to get them you would want to use the surfaces for cortical gray and cerebral white, then add in the volumes from the asegs I guess.
cheers, Bruce
On Tue, 8 May 2007, Frederick Klauschen wrote:
Hi,
I would like to ask if the following procedure is recommended when using FreeSurfer for (total) gray and white matter volumetry, or if specific parameter settings are known to optimize this task.
"Default processing stream (recon-all -all) is used. Data are visually inspected, and manual interventions are performed where automated steps fail. These include manual alignment to the talairach template in cases where automated registration is poor, and adjustments to the watershed threshold to restore areas of the brain that are erroneously removed during skull stripping."
Thanks, Frederick
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