Sorry, I missed it - forgive my absent mindedness :(
Onto a more valid problem (I hope!), I've had trouble segmenting the olfactory sulcus on some of my images. The wm wolume seems to segment well, but the orig and/or white surface doesn't follow this. Rather than enter the olfacoty sulcus, only partially enters it. I was curious as to why the orig/white surface would not follow the surface of the wm volume, and if there is anyway to fix it? Thanks, Alex
-----Original Message----- From: Doug Greve [mailto:greve@nmr.mgh.harvard.edu] Sent: Tue 9/20/2005 4:03 AM To: Fornito, Alexander Cc: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Autorecon re-processing
does your version not tell you these things when you run -help?
Fornito, Alexander wrote:
HI, Just wanted to check a few things re: re-running autorecon. I'm guessing that re-running autorecon with the -pial flag re-runs make_final_surfaces, which takes about 4-6 hours (correct?). What is re-run when the -wm and -cp flags are used, and how long do they take?
From what I understand, -cp would require re-running everything from intensity normalization on, including the subcortical segmentation, while -wm would require re-running the topology fixer and final surfaces.
Does this sound about right? Thanks, Alex
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