[Insight-users] Re: AntiAliasBinaryImageFilter : Segmentation methods : yes, there are many in ITK :-)

[Luis Ibanez]

Hi Alam,

Yes, there are *MANY* segmentation methods in ITK
in addition to SimpleFuzzyConnectedness.


Please read the Segmentation Chapter of the
ITK Software Guide

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


and the Tutorial on segmentation methods

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




Among others segmentation methods in ITK
you will find the following:


   - Level Set Methods

        FastMarching
        FastMarchingExtension
        ShapeDetection
        GeodesicActiveContours
        ThresholdSegmentation
        CannyEdgesSegmentationLevelSet


   - Region Growing

        Confidence connected
        Connected Threshold
        Isolated Connected


   - Markov Random Fields


   - Watersheds


   - Statistical Classifiers

        Gaussian Mixture Modeling
        Generic framework for classification


   - Cellular Algorithms


   - Segmentation by Model-to-Image registration


   - Atlas Segmentation by deformable registration


   - Deformable Models

         With Triangular Meshes
         With Simplex Meshes



All of those methods are N-Dimensional, with the exception
of the Deformable Models using Meshes and Simplex Meshes.


If you need a VTK image as output you can use the filter


              itkImageToVTKImageFilter


That you will find in

       InsightApplications/Auxiliary/vtk


You must also read the Tutorial on the combined use of ITK and VTK.
This is the Session  "Getting Started II" in


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




   Regards,


      Luis




--------------------------
Alam, Mohammed wrote:

> Hi Luis,
> Thanks a lot....it worked perfectly. However I am in search of a 3D
> Segmentation technique, and even better if I can get a vtk object as an
> ouput. Do you know of some good 3D segmentations in ITK other than
> SimpleFuzzy?
> 
> Thanks
> Alam
> 
> -----Original Message-----
> From: Luis Ibanez [mailto:luis.ibanez at kitware.com] 
> Sent: Tuesday, November 02, 2004 3:12 PM
> To: Alam, Mohammed
> Cc: Insight-users at itk.org
> Subject: Re: AntiAliasBinaryImageFilter
> 
> 
> Hi Alam,
> 
> Please try the second part of my email.
> It will be much simpler.
> 
> For your convenience, I'm attaching the example
> program to this email.
> 
> Yo will just need to create a MetaImage header
> for your RAW image.
> 
> 
>     Regards,
> 
> 
>        Luis
> 
> 
> 
> -----------------------
> Alam, Mohammed wrote:
> 
> 
>>Hi Luis;
>>
>>I have already tried your first part of email. I did change the
> 
> typedef
> 
>>= unsigned short. I am also attaching my sample.parameters file with
>>this email.
>>
>>I am still getting the same error :ImageFileWriter: No ImageIO, or
> 
> none
> 
>>could be created. If you want I can send you my raw image too.
>>
>>Thanks
>>Alam
>>
>>-----Original Message-----
>>From: Luis Ibanez [mailto:luis.ibanez at kitware.com] 
>>Sent: Tuesday, November 02, 2004 2:44 PM
>>To: Alam, Mohammed
>>Cc: Insight-users at itk.org
>>Subject: Re: AntiAliasBinaryImageFilter
>>
>>
>>Hi Alam,
>>
>>Please read the README.txt file in the directory
>>
>>    InsightApplications/
>>        AntiAliasBinaryImageFilter
>>
>>It tells you that you have to modify the file:
>>
>>     itkAntiaAliasBinaryImageFilterExample.cxx
>>
>>at line 41:
>>
>>     typedef char InputDataType;
>>
>>if you want ot read Raw files of pixel type different
>>from char.
>>
>>In your particular case, you want to change
>>this typedef to be:
>>
>>     typedef unsigned short InputDataType;
>>
>>Then you have to fill in the information of the parameter
>>file, as explained in the README.txt file.
>>
>>
>>--------
>>
>>
>>For your convenience we just added a simple example
>>on how to use this filter.
>>
>>You will find this new example under
>>
>>
>>    Insight/Examples/Filtering/
>>               AntiAliasBinaryImageFilter.cxx
>>
>>
>>It expects a 3D image as input and produces as output the
>>antialiased version of the input image.
>>
>>
>>You will have to update your CVS checkout in order to
>>get this new example. Or, you can download it directly
>>from the following link to the CVS-Web portal
>>
>>
> 
> http://www.itk.org/cgi-bin/viewcvs.cgi/Examples/Filtering/AntiAliasBinar
> 
>>yImageFilter.cxx?rev=1.1&root=Insight&view=log
>>
>>In order to read your RAW images into this program,
>>you can create a MetaImage header for those files.
>>Please follow the instructions posted in the previous email:
>>http://www.itk.org/pipermail/insight-users/2004-November/010906.html
>>
>>
>>NOTE that you still have to make sure that the pixel
>>type used in the ImageFileReader matches the pixel
>>type of your files.
>>
>>
>>
>>Please let us know if you have any further questions,
>>
>>
>>      Thanks
>>
>>
>>         Luis
>>
>>
>>
>>------------------
>>
>>
>>
>>Alam, Mohammed wrote:
>>
>>
>>>Hi Luis,
>>>
>>>I am trying to use the AntiAliasBinaryImageFilter. I am using an
>>>unsigned short raw file of total 74 images and an unsigned_Char raw
>>>binary file. 
>>>
>>>However the program keeps terminating and says the raw file has a
>>
>>syntax
>>
>>
>>>error. Can you help me with this filter? I can send you the raw files
>>
>>if
>>
>>
>>>you need.
>>>
>>>Thanks
>>>Alam
>>>
>>>
>>>
>>>
>>
>>
>>
>>
>>
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