http://nmr.mgh.harvard.edu/~nbilenko/seg/subj1_sag140.tif and http://nmr.mgh.harvard.edu/~nbilenko/seg/subj1_sag140_fixed.tif

What could be causing that?

In another subject, some white matter in the temporal lobe did not get identified, even after adding points to wm.mgz. Example images are in:

http://nmr.mgh.harvard.edu/~nbilenko/seg/subj2_hor140.tif and http://nmr.mgh.harvard.edu/~nbilenko/seg/subj2_hor140_T1.tif

I suspect that this might be due to signal dropout due to sinuses - is that likely to be the case? Is there any way to fix it?

Thank you very much,
Natalia

On Tue, Jun 15, 2010 at 5:49 PM, Bruce Fischl <fischl@nmr.mgh.harvard.edu> wrote:

Hi Natalia,

you need to figure out what's causing the error in order to understand whether a given fix is going to help. Sorry, I know that's a bit vague, but it really is a case-by-case thing, although there are only a smallish class of different types of problems (maybe 5 or so)

Bruce

On Tue, 15 Jun 2010, Natalia Bilenko wrote:

Hi all,

I have a question about fixing surface segmentation errors while doing an
anatomical reconstruction. When I try to fix some white matter surface
errors by deleting/adding points to wm.mgz and running recon-all
-autorecon-wm, they sometimes get fixed only partially or not at all. I was
just wondering if there is any way to predict whether a certain volume fix
is going to alter a segmentation, or if the only way to find out is to fix
the volume and wait for the results of autorecon2.

Thanks!
Natalia

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