[Insight-users] Multimodality Image Fusion.

Dan Mueller dan.muel at gmail.com
Wed Oct 17 05:42:07 EDT 2012 

Hi Ashwath,

Unfortunately I can't really suggest where you went wrong without
seeing the exact code/process you took.

Please provide a minimal reproducible example, including complete
source code. This way the mailing list can inspect the code, and if
need be even compile it themselves, to help you.

Regards, Dan

On 17 October 2012 17:38, Ashwath Hegde, ERS-HCLTech <Ashwathh at hcl.com> wrote:
> Hi Dan,
>
> Thanks for your reply.
> I gave "CT.png" and "MRI.png" as the inputs to the "ImageRegistration1.cxx" program.
> And got the output("ImageRegistration1Ouput.png") as in the attached file.
> Where  am I going wrong.
> Please guide me on this.
>
> Regards,
> Ashwath.
>
> -----Original Message-----
> From: Dan Mueller [mailto:dan.muel at gmail.com]
> Sent: Wednesday, October 17, 2012 11:27 AM
> To: Ashwath Hegde, ERS-HCLTech
> Cc: Insight Users
> Subject: Re: [Insight-users] Multimodality Image Fusion.
>
> Hi Ashwath,
>
> You should give the fixed image and moving image (with transform applied). That is, BrainProtonDensitySliceBorder20.png and ImageRegistration1Output.png.
>
> HTH
>
> Cheers, Dan
>
> On 17 October 2012 16:24, Ashwath Hegde, ERS-HCLTech <Ashwathh at hcl.com> wrote:
>> Hi Dan,
>>
>> Thanks for the reply.
>>
>> I executed the example"ImageRegistration1.cxx".
>> Its input's and outputs are as shown below.
>> //    INPUTS: {BrainProtonDensitySliceBorder20.png}
>> //    INPUTS: {BrainProtonDensitySliceShifted13x17y.png}
>> //    OUTPUTS: {ImageRegistration1Output.png}
>> //    OUTPUTS: {ImageRegistration1DifferenceAfter.png}
>> //    OUTPUTS: {ImageRegistration1DifferenceBefore.png}
>>
>> Instead of the above two inputs ,I gave the inputs as CT.png and MRI.png.
>>
>> And I got the following three ouputs:
>> //    OUTPUTS: {ImageRegistration1Output.png}
>> //    OUTPUTS: {ImageRegistration1DifferenceAfter.png}
>> //    OUTPUTS: {ImageRegistration1DifferenceBefore.png}
>>
>> After registration, which two images I should give as inputs to  itkAddImageFilter for fusing.
>>
>> Please guide me on this.
>>
>> Thanking you in advance,
>> Regards,
>> Ashwath.
>>
>> -----Original Message-----
>> From: Dan Mueller [mailto:dan.muel at gmail.com]
>> Sent: Wednesday, October 17, 2012 2:03 AM
>> To: Ashwath Hegde, ERS-HCLTech
>> Cc: Insight Users
>> Subject: Re: [Insight-users] Multimodality Image Fusion.
>>
>> Hi Ashwath,
>>
>> You should do the following:
>>
>> Step 1: Download and build ITK
>> http://www.itk.org/ITK/resources/software.html
>> http://www.itk.org/ITK/help/tutorials.html
>>
>> Step 2: Read the ITK Software Guide, especially chapter 8
>> http://www.itk.org/ItkSoftwareGuide.pdf
>>
>> Step 3: Build and play with a registration example, for example
>> ImageRegistration2.cxx
>> http://public.kitware.com/cgi-bin/viewcvs.cgi/Examples/Registration/Im
>> ageRegistration2.cxx?root=Insight&view=markup
>>
>> Step 4: Decide how you want to fuse the images
>> http://www.imagefusion.org/publications/reports/piella-TR-PNA-R0211.pd
>> f The simplest way to fuse them is arithmetic addition using the
>> itkAddImageFilter
>> http://www.itk.org/Doxygen/html/classitk_1_1AddImageFilter.html
>>
>> HTH
>>
>> Cheers, Dan
>>
>> On 16 October 2012 23:33, Ashwath Hegde, ERS-HCLTech <Ashwathh at hcl.com> wrote:
>>> Hi Dan,
>>>
>>> Thanks for the reply. I had one doubt.
>>> How should I start with image fusion of two images(CT and MRI) using ITK.
>>> Please guide me on this.
>>>
>>> Thanking you in advance.
>>> Ashwath
>>>
>>> -----Original Message-----
>>> From: Dan Mueller [mailto:dan.muel at gmail.com]
>>> Sent: Tuesday, October 16, 2012 1:30 AM
>>> To: Ashwath Hegde, ERS-HCLTech
>>> Cc: Insight Users
>>> Subject: Re: [Insight-users] Multimodality Image Fusion.
>>>
>>> Hi Ashwath,
>>>
>>> Thank you for further explaining your objective -- this makes it easier for the mailing list to offer you advice.
>>>
>>> The steps you suggest seem correct. The only advice I may offer is that with the ITK registration framework, registration and resampling are one and the same step (i.e. the output of the registration process is a resampled moving image):
>>> 1. Registration and resampling
>>> 2. Image fusion
>>> 3. Fused image display
>>>
>>> You are correct that ITK can perform 1 and 2, and VTK (plus a chosen GUI framework, like QT) can perform 3.
>>>
>>> For step one, please read the ITK Software Guide (chapter 8, pages 315-501):
>>>     http://www.itk.org/ItkSoftwareGuide.pdf
>>>
>>> Also, you can find many relevant registration examples with the ITK source code or on the wiki:
>>>     http://www.itk.org/Wiki/ITK/Examples/Included/Registration
>>>
>>> For step two, you have many options. The following links may help:
>>>     http://www.imagefusion.org/
>>>     http://www.imagefusion.org/publications/reports/piella-TR-PNA-R0211.pdf
>>>     http://www.insight-journal.org/browse/publication/103
>>>
>>> For step three, you can find some examples here:
>>>     http://public.kitware.com/cgi-bin/viewcvs.cgi/Examples/GUI/Qt/
>>>     http://www.thihaoo.com/eng/?p=45
>>>
>>> Hope this helps.
>>>
>>> Regards, Dan
>>>
>>> On 15 October 2012 20:17, Ashwath Hegde, ERS-HCLTech <Ashwathh at hcl.com> wrote:
>>>> Hi Dan,
>>>>
>>>> Thanks for your reply.
>>>> I am very new to image fusion understanding.
>>>> I will let you know briefly what my objective is:
>>>> I have a CT and MRI image of the same organ.
>>>> I want to fuse them and produce a new image which can show the soft tissues of MRI scan as well as bones structure of CT scan.
>>>> I am not aware of different methods of fusion.Please let me know different methods of image fusion if  you are aware.
>>>> I read in a article in internet that following are the steps for image fusion:
>>>>
>>>> 1.)Image registration
>>>> 2.)Image resampling
>>>> 3.)Image fusion by pixel averaging
>>>> 4.)Fused image display
>>>>
>>>> Did I miss something. please let me know.
>>>>
>>>> I believe that first 3 steps I can do in ITK and 4th step in VTK.
>>>> Am I  right about this.Please let me know.
>>>>
>>>> Regards,
>>>> Ashwath
>>>>
>>>> -----Original Message-----
>>>> From: Dan Mueller [mailto:dan.muel at gmail.com]
>>>> Sent: Saturday, October 13, 2012 3:20 AM
>>>> To: Ashwath Hegde, ERS-HCLTech
>>>> Cc: Insight Users
>>>> Subject: Re: [Insight-users] Multimodality Image Fusion.
>>>>
>>>> Hi Ashwath,
>>>>
>>>> (I have re-added the ITK mailing list to cc as this is good
>>>> practice.)
>>>>
>>>> I guess it depends on what you mean by "fusion". Can you please explain exactly what you mean by this term?
>>>>
>>>> The Insight Journal article I pointed you to is 100% ITK. As the article explains, it implements multi-resolution fusion of multi-modal images.
>>>>
>>>> Perhaps you interested in overlay fusion methods, such as those in the VV fusion viewer:
>>>>     http://www.midasjournal.org/browse/publication/617
>>>>
>>>> VV fusion viewer is a ITK + VTK + QT application which you may give some ideas on how to get started building your own app.
>>>>
>>>> Hope this helps.
>>>>
>>>> Regards, Dan
>>>>
>>>> On 12 October 2012 20:17, Ashwath Hegde, ERS-HCLTech <Ashwathh at hcl.com> wrote:
>>>>> Hi Dan,
>>>>>
>>>>> Thanks for your suggestion.But I want to develop a Multimodality Image Fusion application using ITK,VTK and QT only.
>>>>> Could you please give me the steps for image fusion.
>>>>> It would be a great help to me.
>>>>>
>>>>> Thanking you in advance,
>>>>> Ashwath.
>>>>>
>>>>> -----Original Message-----
>>>>> From: insight-users-bounces at itk.org
>>>>> [mailto:insight-users-bounces at itk.org] On Behalf Of Dan Mueller
>>>>> Sent: Friday, October 12, 2012 11:56 AM
>>>>> To: Ashwath Hegde, ERS-HCLTech
>>>>> Cc: insight-users at itk.org
>>>>> Subject: Re: [Insight-users] Multimodality Image Fusion.
>>>>>
>>>>> Hi Ashwath,
>>>>>
>>>>> You might be interested in the "Generalised Image Fusion Toolkit"
>>>>> (GIFT) which was submitted to the Insight Journal some years back:
>>>>>    http://www.insight-journal.org/browse/publication/103
>>>>>
>>>>> I'm not sure it will compile out-of-the-box with the latest ITK, but only minimal changes would be required if not.
>>>>>
>>>>> If you are interested in the registration (i.e. spatial alignment) of such images before actual fusion, then please consult the Insight Software Guide "Registration" section:
>>>>>     http://www.itk.org/ItkSoftwareGuide.pdf
>>>>>
>>>>> HTH
>>>>>
>>>>> Cheers, Dan
>>>>>
>>>>> On 12 October 2012 15:47, Ashwath Hegde, ERS-HCLTech <Ashwathh at hcl.com> wrote:
>>>>>> Hi All,
>>>>>>
>>>>>>
>>>>>>
>>>>>> Please let me know if there is example on Multimodality Image
>>>>>> Fusion(fusing CT and MRI images) in ITK.
>>>>>>
>>>>>> Your help would be highly appreciated.
>>>>>>
>>>>>>
>>>>>>
>>>>>> Thanks in advance,
>>>>>>
>>>>>> Regards,
>>>>>>
>>>>>> Ashwath.
>>>>>>
>>>>>>
>>>>>>
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