Hi
try fslswapdim invol RL PA IS outvol
that should convert to axial slicing
Cheers
Kerstin
Yi-Shin Sheu wrote:
> Hi,
>
> I think your mprage image was taken in the sagital view.
>
> You will need to re-orient the mprage image before any spatial
> registration, otherwise, you will get a distorted brain.
>
> I know two ways to correct the orientation:
>
> 1. Use MRIcro [go to "file" --> save as (rotate/clip/format...)] -->
> then choose format to "sagittal-left".] However, you will need to do
> one by one using this method.
> 2. Use fslswapdim, you can try and error to find the correct
> combination of xyz, i think you will need something like -z x y, not sure.
>
> Yi-Shin
>
> On Mon, Mar 30, 2009 at 7:40 PM, Gregg DiGirolamo
> <[log in to unmask] <mailto:[log in to unmask]>> wrote:
>
> I'm having the same problem, and when I try to use Feat to
> register the anatomy, it confuses
> the saggital with coronal, etc.
>
> Mark said it was just a question of display, but the registations
> aren't working.
>
> Best,
> Gregg
>
>
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