Registration

[Fabrice Senger]

Dear all,

I acquire stacks over time (4D sequences) and have trouble as in my sample I have kind of distorsion...now I would like to do registration, but the movement in my sample is composite : translation and rotation.

I tried basic approaches with MultiStackReg and some FIJI tools but could not succed in correcting the rotation...

Has someone an idea on how to achieve this ?

Thank you in advance,

Fabrice.

[ctrueden]

Hi Fabrice,

Fiji provides at least three nice tools for doing registration:

1) TrakEM2 - http://pacific.mpi-cbg.de/wiki/index.php/TrakEM2
2) BUnwarpJ - http://pacific.mpi-cbg.de/wiki/index.php/BUnwarpJ
3) Stitching 2D/3D -
http://pacific.mpi-cbg.de/wiki/index.php/Stitching_2D/3D

To my knowledge, all three of these solutions are planar in nature, meaning
they will not register stuff in true 3D. And in your case the Stitching
plugin will probably not help, since you have translation and rotation.

Both TrakEM2 and BUnwarpJ work by identifying and correlating features on
each image plane, but their approach differs regarding how they transform
the planes. BUnwarpJ attempts to "unwarp" the image planes onto the plane
chosen as a reference, using cubic B-splines, with a multi-resolution "image
pyramid."

For more details, see the wiki pages above. If you have questions, you can
ask here, on the Fiji mailing lists (
http://pacific.mpi-cbg.de/wiki/index.php/Help:Contents) or the Fiji IRC
channel (http://pacific.mpi-cbg.de/wiki/index.php/IRC).

-Curtis

On Thu, Mar 18, 2010 at 12:58 PM, Fabrice Senger <
[hidden email]> wrote:

> Dear all,
>
> I acquire stacks over time (4D sequences) and have trouble as in my sample
> I have kind of distorsion...now I would like to do registration, but the
> movement in my sample is composite : translation and rotation.
>
> I tried basic approaches with MultiStackReg and some FIJI tools but could
> not succed in correcting the rotation...
>
> Has someone an idea on how to achieve this ?
>
> Thank you in advance,
>
> Fabrice.
>