In theory you can do this with FLIRT (the input image can be 2D and you can
choose to either restrict the transformations to 2D or 3D via the command line
schedule files).  However, in practice it is very, very difficult to get good registrations
in this case.  What kind of data do you have?

All the best,

On 8 Mar 2012, at 13:46, Subscribe Fsl Chen PJ wrote:

> Hi,
>    I am now doing some work on registration, and I need to use 2d/3d registration,
> FLIRT is capable of 2d/2d and 3d/3d registration. I want to know if there are any
> tools or commands in FSL can do 2d/3d registration?
> all the best