[Insight-users] MultiResMIRegistration problem

[Karthik Krishnan]

Hi Laurent,

You will find the files brainweb165a10f17 and brainweb1e5a10f17Rot10Tx15 
in ftp://public.kitware.com/pub/itk/Data/BrainWeb/ in one of the tar 
balls. You will also find examples for parameters for 
MultiResMIREgistration in
./InsightApplications/MultiResMIRegistration/SampleInputs/PracPETToPD.txt
./InsightApplications/MultiResMIRegistration/SampleInputs/BrainWebT1toT2a.txt
./InsightApplications/MultiResMIRegistration/SampleInputs/BrainWebT1toT2b.txt
./InsightApplications/MultiResMIRegistration/SampleInputs/PracCTtoT1.txt

The application does not work for 2D images but it should be easy to 
modify it to 2D. Unfortunately you will have to make changes in quite a 
few places, since the dimension is hardcoded in several places, in the 
translation scales etc. You will also need to change the transform, the 
file parser etc.

Level: Number of levels of multi-resolution to use
Lines 6-7: Please take a look at the software Guide section on the 
MultiResolutionPyramidImageFilter. The values set the starting shrink 
factor for the pyramid. Subsequenly the pyramid is shrunk by a factor of 
2 (along each dimension) till it gets to the top level.
Line 10: The translation scale sets the translation scale for the 
optimizer. The rigid (quarternion) optimizer optimizes the 3 parameters 
of the quaternion (rotation params) + 3 translation params. Since the 
rotation and translation parameters have different degrees of influence, 
the scale for the translation parameters is usually a lot smaller than 
the ones for the rotation.

Thanks
regards
kk

laurent.paul at club-internet.fr wrote:

>
> Hi!
>
> I need help! Take a cup of columbian coffee!
> I try to use MultiResMIRegistration example.
>
> To be simple, I have series of Dicom files for CT and Analyze for PET. 
> I can convert these in any type of file (except ones I don't know as 
> .mha .mhd). I'd want to register these series.
> It would be great if you could say me what type of volume I can use 
> (Analyze, serie of 2D images as TIFF, JPG, PNG, Dicom, or other). 
> Apparently, the volume is passed by his header file?
> Is the two volumes must have the same dimensions (number of slices) 
> and include the same part of the volume? In fact PET embodies the 
> whole patient when the CT embodies only the pelvis. Is that a problem?
>
> I saw in users archives that I could use *.mha files. What are that 
> files? I have some but can't open them. Tell me more about that 
> format. Softwares tell me header is wrong(?!).
>
> I managed to run the application but just for 2D file. The result is 
> very bad but that's normal becuse the files I tried to register are 
> pelvis images (PET contains few informations, just the tumor). I'd 
> want to try before with brain images (less difficult to register I 
> think). I saw in the users archives that there are images on the ftp 
> server, brainweb165a10f17 and brainweb1e5a10f17Rot10Tx15. I didn't 
> find them. Is this application works with 2D images?
>  
> Least, I don't understand some parameters.
> Line 5: Multi resolution level? Which level?
> Line 6-7:starting level?
> Line 10: Scale applied?
>


> I know that's a lot of questions but I don't understand Please, just 
> give me some keys to register brain images.
>
> Thanks for your help.
>
> Laurent PAUL.
>
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