[Insight-users] Need advice on LV MRI segmentation

[Barry Branham]

Hi Luis,

Thanks for pointing out my web site problem.  It should be fixed now, 
let me know if it isn't.

Luis Ibanez wrote:
> Hi Barry,
>
> I couldn't access your web site today.
> Is it still available ?
>
> --
>
> Also, we just committed a fix to the Doxygen documentation of
> the itkBalloonForceFilter:
> http://public.kitware.com/cgi-bin/viewcvs.cgi/Code/Algorithms/itkBalloonForceFilter.h?root=Insight&r1=1.41&r2=1.42&sortby=date
>
>
>    Thanks for helping us track this problem.
>
>
>         Luis
>
>
> --------------------------------------------------------------
> On Sun, Nov 15, 2009 at 10:19 PM, Barry Branham <bhb at branham.ws> wrote:
>   
>> Hi Luis,
>>
>> I just resurrected my website using Drupal this afternoon.  It was either
>> that or facebook.
>> I put the Dicom file and two screen shots at
>> http://branham.ws/?q=Navigation/4
>>
>> I revisited BalloonForceFilter, Luis, and discovered you were actually right
>> the first time in saying it was for 3D.  It's just the description that is
>> wrong.  It is in fact BalloonForce3DFilter.  The reason it was crashing for
>> me was I was giving it a 2D Mesh and it was trying to access the 3rd dim
>> components.  The test app you mentioned "itk2DDeformableTest.cxx", uses
>> Mesh<double> with the default Dimension parameter == 3 and then uses
>> SphereMeshSource to initialize the mesh.  So itk2DDeformableTest.cxx should
>> be renamed and the description in itkBalloonForceFilter.h needs updating.
>>
>> Looking forward to any ideas on segmenting the Epi.
>>
>> Thanks,
>> Barry
>>
>>
>>
>> Luis Ibanez wrote:
>>     
>>> Hi Barry,
>>>
>>> Could you please post screenshots of your images to a public web site ?
>>>
>>> In particular, the original tagged MRI image, and the segmentation that
>>> you are obtaining so far.
>>>
>>> If we can see the images, it will be a lot easier to advise you on the
>>> potential segmentation methods that you may want to try.
>>>
>>>     Regards,
>>>
>>>
>>>            Luis
>>>
>>>
>>> --------------------
>>> On Sun, Nov 8, 2009 at 9:36 PM, Barry Branham <bhb at branham.ws> wrote:
>>>
>>>       
>>>> Hi all,
>>>>
>>>> I'm working on a project to segment left ventricular walls from 2D MRI
>>>> images and would like to get advice on how to proceed with the epicardial
>>>> walls.
>>>>
>>>> My project is to segment left ventricular walls (the round ones) from 2D
>>>> MRI
>>>> images.  I'm using 2D because the main application uses Tagged MRI images
>>>> for determining tissue displacements for input into an FEA application
>>>> for
>>>> determining wall stress/strains.  And the Imaging sequence requires long
>>>> patient breath holds so apparently they are limited in the number of
>>>> slices
>>>> output so my slice spacing is about 8mm.  Fortunately they have recently
>>>> also acquired non-tagged images that I can use for segmentation.  I have
>>>> had
>>>> good luck segmenting the endocardial walls using IntensityWindow ->
>>>> CurvatureFlow -> ConfidenceConnected, then
>>>> DeformableMesh2DFilter which I converted from DeformableMesh3DFilter.
>>>>
>>>> The epicardial walls are harder because of the lack of large gradients on
>>>> part of the outside (non-septal) wall.  My current plan is to use a
>>>> deformable model generated by getting the major axis from the endo wall
>>>> and
>>>> generating a slightly larger oriented ellipse from that.  I need a good
>>>> way
>>>> to enlarge it to fit the epicardial wall.
>>>>
>>>> Thanks for any suggestions,
>>>> Barry Branham
>>>> Cardiothoracic Surgery Research
>>>> Washington University School of Medicine
>>>> St. Louis, MO
>>>>
>>>> _____________________________________
>>>> Powered by www.kitware.com
>>>>
>>>> Visit other Kitware open-source projects at
>>>> http://www.kitware.com/opensource/opensource.html
>>>>
>>>> Kitware offers ITK Training Courses, for more information visit:
>>>> http://www.kitware.com/products/protraining.html
>>>>
>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>
>>>> Follow this link to subscribe/unsubscribe:
>>>> http://www.itk.org/mailman/listinfo/insight-users
>>>>
>>>>
>>>>         
>>>       
>>     
>
>