Dear Mark,

I used the FLIRT GUI, and chose the "Rigid Body (6 parameter model)", other options are the default. And then I still used "Rigid Body (6 parameter model)" and tried the cost function "Mutual Information", and the result seems not so good. The ROI is still in misplacement.

Could you give me some advice?

Thank you very much,

Ran

On Sat, Nov 16, 2013 at 9:24 AM, Mark Jenkinson <[log in to unmask]> wrote:

Dear Ran,

What commands did you run?
I found the description here unclear.

All the best,
Mark

On 15 Nov 2013, at 20:32, Ran Xu <[log in to unmask]> wrote:

> Dear FSL experts,
>
> I used FLIRT to register the different images of one person, T1-weighted image and another T1-weighted image. These two images have the same resolution 1x1x1, and different the image size, one is 256x256x256 in Freesurfer space and the other is 256x256x150. Also, I applied this transformation to a ROI in Freesurfer space and I used the rigid with 6 dof option, but the results are wrong.
> Could someone tell me why this happened?
>
> Thanks,
> Ran