Re: [Freesurfer] Using Subcortical initial output, with "fixed" cortical output

Hi Mark

that's the way we always processed things before 5.1 and will do after 5.1, so just state what you did Bruce On Thu, 15 Nov 2012, Mark Fletcher wrote:

Dear FreeSurfers,

I am using a Linux computer with FS 5.1  Due to the known "feauture" in version 5.1 where "Control points may adversely affect aseg" but also may alter the " subcortical segmentation", is it acceptable to use the initial subcortical output (before adding control points) for analysis, and then use the cortical volumetric output (after control points have been added) from corrected brains?  If this is acceptable, any suggestions on how to phrase this for a paper without it seeming like FreeSurfer has a bug?

Sincerely,

Mark