What should I erase? Sorry, I did mean to say I saw the surface errors overlaid on the volume, but couldn't discern any in the wm.mgz alone. It's 3D FLASH on a Vision 1.5T, TR/TE= 20/5.4 ms, flip=30 deg, 1 acquisition, 1x1x1 mm^3 voxels. Nothing fancy, maybe that's the problem...
-Derin
it looks like there is an (incorrect) connection in the wm.mgz from the temporal lobe across the insula. The data also looks really noisy - what is the acquisition? You'll need to erase some stuff form the wm.mgz I think.
On Fri, 13 Apr 2007, 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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