[Freesurfer] which step comes first

Hi, when reconstructing the brains including manual edits, does the step that incorporates control points come before the white matter edits? Ie so if I do both control points and white matter edits, will the white matter edits be take into account even if I just use -autorecon -cp , and not -wm?

Re: [Freesurfer] which step comes first

Hi Catherine, Using the -autorecon-cp will take care of both cp and wm edits. Be sure to run -autorecon3 afterwards if you are satisfied with the edits you made. -Louis On Mon, 10 Dec 2012, Catherine Bois wrote: Hi, when reconstructing the brains including manual edits, does the step that

Re: [Freesurfer] which step comes first

Hi Cathy yes, control points come first, so autorecon2-cp will do the wm stuff also cheers Bruce On Mon, 10 Dec 2012, Catherine Bois wrote: Hi, when reconstructing the brains including manual edits, does the step that incorporates control points come before the white matter edits? Ie so if