[ITK-users] [ITK] FEM based deformable registration

[Matt McCormick]

Hi Antony,

In that case, the rat lung data that is used for some of the other
deformable registration examples may be a good dataset to work with.
Is there a time in the last week of May that would work for you to
have a Google+ Hangout to get started on the example?

Thanks,
Matt

On Thu, Apr 17, 2014 at 6:50 AM, Tony <bowler0_uk at yahoo.com> wrote:
> Hi Matt,
>
> If you would be able to help that would be fantastic, my knowledge of FEM is very limited so working in the guts of the code is probably beyond me without a significant amount of invested time. I work in a hospital so there are information governance issues about sending scans but I'm sure that I can arrange for a pair of suitably anonymised data sets to be prepared. The particular use case I am interested in is in lung where there is a huge variation in motion between bony anatomy and lung tissue itself. A colleague is supervising a mathematics PhD student looking at methods of deformable registration and they may be interested in helping me as well.
>
> Regards,
>
> Antony
>
>
> ----- Original Message -----
> From: Matt McCormick <matt.mccormick at kitware.com>
> To: Tony <bowler0_uk at yahoo.com>
> Cc: "insight-users at itk.org" <insight-users at itk.org>
> Sent: Wednesday, 16 April 2014, 4:42
> Subject: Re: [ITK] [ITK-users] FEM based deformable registration
>
> Hi Tony,
>
> I am not aware of an example of constructing a FEMObject in this way.
> We could work on creating one.  Is there an example dataset to work
> on?
>
> Thanks,
> Matt
>
> On Tue, Apr 15, 2014 at 2:01 PM, Tony <bowler0_uk at yahoo.com> wrote:
>> Hi Matt,
>>
>> I think this is what I am looking for. I don't know a huge amount about FEM so I'm not sure I would trust myself to construct the FEM object based on what I have found so far. Is it possible to let the registration filter construct the object as in deformable registration example 11 for example and then I modify the material properties? Alternatively, is there fairly extensive documentation for using FEMObject somewhere beyond the code browser?
>>
>> Thanks,
>>
>> Tony
>>
>> ----- Original Message -----
>> From: Matt McCormick <matt.mccormick at kitware.com>
>> To: Tony <bowler0_uk at yahoo.com>
>> Cc: "insight-users at itk.org" <insight-users at itk.org>
>> Sent: Monday, 14 April 2014, 18:05
>> Subject: Re: [ITK] [ITK-users] FEM based deformable registration
>>
>> Hi Tony,
>>
>> By default the FEM-based deformable registration assumes uniform
>> material properties.  If different material properties are chosen a
>> priori, a manually constructed FEMObject could in principle be set
>> with SetInputFEMObject [1].  This is much simpler than the general
>> inverse problem, where an attempt is made to also learn the material
>> elasticity.  However, if there is some indication with intensity, for
>> example, of local elasticity in the input images, it could be used to
>> generate a more realistic result.
>>
>> Hope this helps,
>> Matt
>>
>> [1] http://www.itk.org/Doxygen/html/classitk_1_1fem_1_1FEMRegistrationFilter.html#a4d27383fe91a76c385c3684f96a63934
>>
>> On Mon, Apr 14, 2014 at 12:00 PM, Tony <bowler0_uk at yahoo.com> wrote:
>>> Dear list,
>>>
>>> I have been trying to learn and understand FEM based deformable registration. Is it possible to assign different material properties to different voxels both in principle and currently in ITK. If the answer to both of these is yes - is there an exmaple floating around?
>>>
>>> Thanks.
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