Hi Claudia
the first thing to do is run recon-all -all to complete a recon. Then you
look through your data (surfaces overlaid on volumes) and determine if it
is accurate (or accurate enough). If not, then control points are one
possible intervention, and yes you would put them in regions of
non-partial-volumed WM in which the intensity is < 110. This can cause the
pial surface to move out as well as the white surface, but there are other
reasons things can go wrong also such as topological defects and such.
cheers
Bruce
On Mon, 18 Mar 2013, Claudia Dacquino wrote:
Hi everyone,
I'm a very new fresurfer user and I have to understand the very simple basis of
its use yet.
So I have some maybe stupid questions about that.
I heve to work on cortical thickness, so I suppose I have to complete the
segmentation and then correcting CPs and Pial
surface.
The first question is if I have to edit CPs first and then, after running
recon-all -autorecon2-cp -autorecon-3, to edit
the Pial surface?
The second is in the CPs editing have I to add ctrl pts in white matter areas
that are less then 110 in voxel intensity?
The last one is how do I have to correct the grey matter? Have I to paint all
the None Sgmtn label points, or just the
ones incorporating a piece of dura?
Thanks a lot, and sorry for the very basic questions.
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