[Insight-users] Output of the atlas segmentation.

[yasser salman]

hi luis ..,
yes u understand acutally what i mean..but how about
the data??  i know in the DemonsRegistration the fixed
images and moving image must have the same dimension
..,SO i have a Volume downloaded from IBSR
(20Normal_T1 & 20Normal_T1_brain) which used in the
atlas segmentaion application (IBSRValidation study in
ITKApplication)
can i use these data for  my own atlas-based
segmentation? also i have a data from brain web
(Simulated Brain Database)  found in
www.bic.mni.mcgill.ca/brainweb.. how can i found the
atlas to simulated brain Volume..? thanx Luis for ur
helpfull support..
yasser..
 


--- Luis Ibanez <luis . ibanez at kitware . com> wrote:
> 
> Hi Yasser,
> 
> 
> I'm not sure I understand your question...
> It seems that you are interested in setting up
> your own atlas-based segmentation procedure.
> 
> 
> The essential class of the segmentation is the
> DemonsRegistrationFilter
>
http://www . itk . org/Insight/Doxygen/html/classitk_1_1DemonsRegistrationFilter . html
> 
> You may want to start by looking at the description
> that Lydia made of this filter on the SoftwareGuide
> 
>    http://www . itk . org/ItkSoftwareGuide . pdf
> 
>     Section 8.13, pdf-page 318.
> 
> The code is described there available at
>
Insight/Examples/Registration/DeformableRegistraton2.cxx
> 
> The output of the Demons filter is a deformation
> field
> (an image of vectors).  You can use this deformation
> field
> as input to the itk::WarpImageFilter
>
http://public . kitware . com/Insight/Doxygen/html/classitk_1_1WarpImageFilter . html
> and resample the moving image with it.
> (this is illustrated in the example).
> 
> If you used the atlas-image as the moving image on
> the
> registration process, then the warped moving-image
> will
> be equivalent to a segmentation of your data.
> (your data to-be-segmented should have been the
> fixed
> image during the registration process).
> 
> You may find simpler to modify the example that is
> described in the software guide.
> 
> 
> For visualizing your data using VTK, you simply need
> to use the ImageToVTKImageFilter classes available
> at
> 
>      InsightApplications/Auxiliary/vtk
> 
> and use the VTK class vtkImageViewer2.
>
http://www . vtk . org/doc/release/4 . 2/html/classvtkImageViewer2 . html
> 
> 
> 
> Please let us know if you find any problems,
> 
> 
> 
>     Thanks
> 
> 
> 
>       Luis
> 
> 
> 
> ---------------------
> yasser salman wrote:
> > hi luis..
> > Is the output af atlas segmentation application is
> > only the validation study .., i mean the Results
> of
> > this application only i found
> > it in Result directory? if yes is there any
> > application( or modification) can i use to
> produced
> > segmented output images based on the atlas
> > segmentation? and i'll use these output files to
> > visualize it using VTK..
> > thanks..,
> > yasser
> > 
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> 
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