Hi Rosalia,
To reorient your images before running SIENAX, you would need to run
fslreorient2std orig orig_std
sienax orig_std
where orig is the name of your original image.
Hope that helps!
Eelke
> On 14 Jan 2016, at 19:13, Rosalia Dacosta Aguayo <[log in to unmask]> wrote:
>
> Thank you very much Elke...I have been seeing the options and I do not know which of the flags I should use :(
>
> Could you tell me in order I can save this image?
>
> Thank you again :)
>
> Rosalia.
>
> 2016-01-14 20:08 GMT+01:00 Eelke Visser <[log in to unmask]>:
> Hi Rosalia,
>
> Running fslreorient2std on your original images before using SIENAX often solves such problems, so unless you have used that already it is probably worth a try!
>
> Best,
> Eelke
>
>
> > On 14 Jan 2016, at 18:50, Rosalia Dacosta Aguayo <[log in to unmask]> wrote:
> >
> > Dear FSL experts,
> >
> > One of my problematic images...even after running SIENAX...gave me this result...how I can cop with this?
> >
> > Thanks,
> >
> > Rosalia.
> > <I2std.png>
>
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