Re: [Freesurfer] Skull strip failure

2012-03-21 Thread Bruce Fischl
Why don't you upload the subject and we'll take a look On Mar 21, 2012, at 8:24 PM, Vincent wrote: > Hi, > > I have an image that is completing the skull strip with a lot of skull > remaining and it is have a large effect on the surfaces. I've tried lowering > the watershed threshold as lo

[Freesurfer] Skull strip failure

2012-03-21 Thread Vincent
Hi, I have an image that is completing the skull strip with a lot of skull remaining and it is have a large effect on the surfaces. I've tried lowering the watershed threshold as low as 5 and I've tried adding the -gcut option, but the low threshold by itself does not eliminate the skull and gcut