Hi Jimmy,
If you only want 90 degree rotations I suggest using avwswapdim instead.
By the look of your matrix you just need to do:
avwswapdim inputimage x -z y outputimage
If you leave off the last argument (outputimage) then you'll see the
transformation matrix that it generates, with the appropriate FOV.
You could then save this matrix and apply it with flirt as per usual
(or use the new ApplyXFM gui).
All the best,
Mark
On Wednesday, November 27, 2002, at 07:02 AM, Jimmy Jensen wrote:
> Dear FSL,
> I am trying to rotate an image 90 degrees in pitch using flirt but it does
> not look so good. I have tried: flirt -in image -out newimage -applyxfm -
> init matrix -ref image. I have tried it with several versions of
> transformation matrices like:
> 1 0 0 0
> 0 0 -1 0
> 0 1 0 0
> 0 0 0 1
>
> I have also used the FOV in the fourth column but it did not help me. Any
> suggestions where I am doing wrong wold be appreciated.
>
> Thanks
> Jimmy
>
> --------------------------------------------
> Jimmy Jensen, PhD
> PET centre
> Centre for Addiction and Mental Health
> Clarke Division
> 250 College St.
> Toronto, ON, M5T 1R8
>
> Phone (416) 535-8501 ext. 6280
> Fax (416) 979-4656
