[Insight-users] Convertin MINC to RAW

[Luis Ibanez]

Hi Lars,

You may want to experiment with the MINCImageIO class that
was contributed to ITK.

You will need an updated CVS checkout,
and you will have to turned ON the following two CMake options:

         ITK_USE_REVIEW
         ITK_USE_MINC2

You will also need to have builds of


         hdf5
         MINC2
         NetCDF

Once you manage to build it, you could simply read the minc file,
and write it as a MetaImage with extension .mhd. That will create
two files on output. One file with extension .mhd will contain a
text header, while a second file with extension .raw will contain
the raw data.


Please let us know if you find any problems building
the MINC support.


     Thanks


        Luis


-------------------
Lars Nygard wrote:
> Luis,
> Thanks for your mail, that clears things up for me. 
> 
> To everybody another question:
>  Ive been all day trying to convert a Minc file to raw date.
> However the result aren't very good. I tried to use the mni package
> from McGill (http://packages.bic.mni.mcgill.ca) but I dont get it 
> to work properly. 
>  Does anybody know how to do this??
> greets,
> lars
> 
> ----- Original Message ----
> From: Luis Ibanez <luis.ibanez at kitware.com>
> To: Lars Nygard <lnygard at yahoo.com>
> Cc: insight-users at itk.org
> Sent: Tuesday, September 11, 2007 5:32:39 AM
> Subject: Re: [Insight-users] Registration Problems Switch fixed moving images
> 
> 
> Hi Lars,
> 
> Your observation on the asymmetry of the Fixed/Moving image
> choice is correct.
> 
> When you are registering images A and B, the results when you
> choose A as fixed image and B as moving image will be different
> from the results that you get when you use B as fixed image and
> A as moving image.
> 
> The role of the two images is asymmetric during the registration
> process.
> 
> For example,
> 
>    1) The field of view of the fixed image has a dominant
>       role over the field of view of the moving image.
> 
>    2) The gradients of the fixed image do not participate on the
>       computation of the metric derivatives. Only the gradients
>       of the moving image are used for computing the metric
>       derivatives.
> 
>    3) The resolution of the fixed image has a dominant role
>       over the resolution of the moving image.
> 
> 
> Some of the impact of this asymmetries can be mitigated by fine
> tunning parameters of the registration components.
> 
> For example, you may be able to get closer to a symmetric behavior
> by increasing the number of samples that you use in the estimation
> of the image metric, at the price of increasing the computation time
> of the registration.
> 
> 
> In any case,
>               this asymmetry is to be expected, and it highlights
> the importance of carefully considering the choice of the fixed image
> role and the moving image role. Note that in some applications, there
> may be clinical or technical reasons that don't quite leave you a
> choice.
> 
> 
> 
>     Regards,
> 
> 
>        Luis
> 
> 
> 
> -------------------
> Lars Nygard wrote:
> 
>>Hi everybody,
>>
>>I have a question concerning registration of a MRT1 image and a MRA (angiography)
>>image. First I have registered them using fiducial markers and take this as goldstandard.
>>Then I have rotated the MRT1 image around its geometrical center to make some registration
>>problems. Im using Versor3DTransform and Versor3DOptimizer and the MattesMutualInformation
>>information.
>>When I take the MRT image as fixed my results are very good, despite the big rotation and 
>>translation i take (various combination of 10 degrees rotation and 10mm translation).
>>However when I set the MRA image as fixed and MRT1 image as moving sometimes I get
>>wrong results. I was wondering, has this anything to do with how I created the problems or does
>>changing fixed and moving images also change convergence characteristics??
>>thanks for any suggestions,
>>lars
>>
>>_______________________________________________
>>Insight-users mailing list
>>Insight-users at itk.org
>>http://www.itk.org/mailman/listinfo/insight-users
>>
> 
> 
> 
> 
> 
> 
>       
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