[Insight-users] Atlas segmentation : Segmentation by registration with an atlas.

[Luis Ibanez]

Hi Yasser,

Yes, ITK offers options for atlas based segmentation.
That is, to achieve segmentation by registering an
input data set against a pre-segmented dataset (the
atlas).

You may want to look at the Demon's registration
method described in the software guide.
http://www . itk . org/ItkSoftwareGuide . pdf
Section 8.13, pdf-page 312.

You will also find a validation application of Atlas-
Segmentation using FEM-based deformable registration
in the InsightApplications module:

InsightApplications/IBSRValidation/FEMAtlasSegmentation
http://www . itk . org/cgi-bin/cvsweb . cgi/InsightApplications/IBSRValidation/FEMAtlasSegmentation/?cvsroot=Insight

----

In principle you could use any of the registration
combinations available in ITK (not only Demons or FEM).

If the segmentation of your atlas is a crisp segmentation
(that is a real binary mask), you could also try the
NarrowBand-to-Image registration method. For this you may
have to combine the filter BinaryMaskToNarrowBandPointSet
http://www . itk . org/Insight/Doxygen/html/classitk_1_1BinaryMaskToNarrowBandPointSetFilter . html
and then the PointSetToImageRegistrationMethod
http://www . itk . org/Insight/Doxygen/html/classitk_1_1PointSetToImageRegistrationMethod . html


Please let us know if you have further questions.


   Thanks


     Luis


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yasser salman wrote:
> hi luis..,
> can i use ITK to label a "brain tissue" from Digital
> Brain atlas using registration process..
>