Derin,
The tutorial pages showing which defects to look for and how to fix them start here:
http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/TroubleshootingData
this includes white matter edits:
http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/WhiteMatterEdits
Nick
On Fri, 2007-04-13 at 15:31 -0500, Derin Cobia wrote:
Here is a pic of the inflated.nofix, how do I know what to edit? I've checked the wm.mgz and it looks fine (at least I can't see any errors). Maybe I'm missing something, I've attached a shot of it as well. Thanks.
-Derin
look at the ?h.inflated.nofix to see what is causing the defect, and correct the wm.mgz manually to remove it. Jenni: can you point Derin at the appropriate wiki page?
thanks, Bruce
On Fri, 13 Apr 2007, Derin Cobia wrote:
The ?h.orig.nofix looks ok, meaning it follows the white-gray boundary appropriately. What should I try next?
-Derin
this is probably a topology fixing problem. Look at the ?h.orig.nofix and see how it is On Fri, 13 Apr 2007, Derin Cobia wrote:
Did you mean wm.mgz? It looks fine. The orig surface is not good either. Here's a pic.
-Derin
Hi Derin,
What does the orig surface look like? and the wm? Are those correct?
Jenni
On Fri, 13 Apr 2007, Derin Cobia wrote:
> I have two subjects where the white surface does not follow the > gray-white > gradient (see attached pic for example). Is there any way to fix > this? > I'm assuming it has to do with the limitations of my scan too (it's > FLASH > data). I'm running 3.0.4, thanks. > > -Derin > >
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