[Insight-users] How to find information about ITK and isosurfaces

[Luis Ibanez]

Hi Catherine:


1) "Where the pixel intensities for the image are stored?"


    They are stored in the image buffer, you get access to
    it by using the GetPixel() method or by using Iterators

    Please read the ITK Software Guide:

      http://www.itk.org/ItkSoftwareGuide.pdf

    in particular Section 4.1 "Image" in pdf-page 67.

    GetPixel() is very slow compared to Iterators.

    So you may want to use Iterators. Please read the
    ITK Software Guide, Section 11.2 "Image Iterators"
    in pdf-page 738.



2) "What type the pixel intensities are ?"

    They have the pixel type that you gave them
    when you instantiated the image:

    For example:

    typedef itk::Image< unsigned short, 3 > ImageType;

    will be an image of pixel type "unsigned short".

    Please read the Tutorials:

      http://www.itk.org/HTML/Tutorials.htm

    In particular:

http://www.itk.org/CourseWare/Training/GettingStartedI-WebPage/index.htm



3)  "how they are passed into the isosurfacing part of ITK ?"

    You pass your image as input to the "BinaryMask3DMeshSource" filter

http://www.itk.org/Insight/Doxygen/html/classitk_1_1BinaryMask3DMeshSource.html

    The output will be an ITK mesh.

    This filter is an impplementation of the marching cubes algorithm.




Please read the introductory documentation to ITK.
It will save you a lot of time down the line.



   Regards,


      Luis


-------------------------
Catherine Peloquin wrote:
> The isosurfaces are indeed for visualization.  I am examining combining 
> ITK and VTK, but I have a my own application that I would prefer to use, 
> which is why I am trying to find out where the pixel intensities for the 
> image are stored, 	 how they are 
> passed into the isosurfacing part of ITK, and where the marching cubes 
> algorithm is located in the source code.
> 
> As I mentioned, I have already searched the mailing list and the 
> manual.  Where can I find this information? 
> 
> Thanks,
> Catherine Peloquin
> 
> On 3/27/07, * Luis Ibanez* <luis.ibanez at kitware.com 
> <mailto:luis.ibanez at kitware.com>> wrote:
> 
> 
>     Hi Catherine,
> 
>     Are the isosurfaces intended for visualization ?
> 
>     If so,
>     what you may want to do is to combine ITK and VTK.
> 
> 
>     You will find examples on how to do this in :
> 
>          InsightApplications/Auxiliary/vtk
> 
>     itkReadITKImage3DSegmentShowVTK.cxx
>     itkReadITKImageSegmentShowVTK.cxx
>     itkReadITKImageShowSplineVTK.cxx
>     itkReadITKImageShowVTK.cxx
> 
> 
>     You may also find interesting the Tutorials:
> 
>          http://www.itk.org/HTML/Tutorials.htm
> 
>     in particular
> 
>     "Getting Started II: Using ITK with VTK."
>     http://www.itk.org/CourseWare/Training/GettingStarted-II.pdf
>     <http://www.itk.org/CourseWare/Training/GettingStarted-II.pdf>
> 
> 
>     If your iso-surfaces are not intended for visualization,
>     but for further processing, you may want to use the
>     filter:
> 
>     "BinaryMask3DMeshSource"
> 
>     http://www.itk.org/Insight/Doxygen/html/classitk_1_1BinaryMask3DMeshSource.html
> 
> 
> 
>         Regards,
> 
> 
>            Luis
> 
> 
>     --------------------------
>     Catherine Peloquin wrote:
>      > I am interested in integrating ITK with a current medical imaging
>     app.
>      > in order to create isosurfaces.  I need to know where the pixel
>      > intensities for the image are stored, what type the pixel intensities
>      > are, and how they are passed into the isosurfacing part of
>     ITK.  I also
>      > am looking for where the marching cubes algorithm is located in the
>      > source code.
>      >
>      > I have searched the forums and have looked through the manual, but am
>      > having a hard time finding the information I need. Is there a way to
>      > search the toolkit located at
>      > http://www.itk.org/Doxygen/html/index.html?  When I use the
>     search bar
>      > at the upper right hand corner of that page, I only get results
>     from the
>      > mailing list.
>      >
>      > Thanks,
>      > Catherine
>      >
>      >
>      >
>     ------------------------------------------------------------------------
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