Fw: [Insight-users] 3D image registration

[Grace Chen]

 Hi Karthik,

 Thank you so much for your help!  But do you mean that for image data of
 thick slices, ITK will acurrately registers them too?

 Because our data is the MR scan of a brain, we expect only rigid movement.
 According to new version of the ITK user manual, it introduces some new
 classes for 3D rigid registration (in section 8.6.4): VersorRigidTransform,
 centeredTransformInitializer, and VersorRigid3DTransformOptimizer.  Can I
 use those classes to perform 3D registration for images of thick slices?
 The user manual seems to imply that those are the only classes I can use
for
 3D rigid regitration, but then you seemed to suggest that there are quite a
 few solutions for our problem?

 Thanx again for your kindness!! :>

 Grace

 ----- Original Message ----- 
 From: "Karthik Krishnan" <Karthik.Krishnan at kitware.com>
 To: "Grace Chen" <Grace.Chen at swri.ca>
 Cc: <insight-users at itk.org>
 Sent: Friday, September 02, 2005 11:18 AM
 Subject: Re: [Insight-users] 3D image registration


 > Regsitration in ITK consists of 4 components:
 > -metric
 > -transform
 > -optimizer
 > -Interpolator
 >
 > Given that the transform is specified in physical co-ordinates (
 > accounts for pixel spacing ), you could try 3D registration on thick
 > slice data as well. Be sure to use a decent interpolator. ( certainly
 > not Nearest neighbor ).
 >
 > The choice of the the transform is entirely up to your study depending
 > on whether you anticipate purely rigid misalignments, pure translations,
 > rotations + translations,  deformations. There are a variety of
 > transforms for each of them.
 >
 > If you are registering MR-MR images, you could use a MeanSquares metric
 > coupled with a Gradient Descent optimzer. If you are registering MR-CT
 > you could try one of the Mutual Information metrics. The GradientDescent
 > optimizers are susceptible to noisy images.  You might consider
 > smoothing the MR images prior to registration.
 >
 > -karthik
 >
 > Grace Chen wrote:
 >
 > > <> Hi all,   I post my question a few days ago and didn't get any
 > > feedback.  So, I post my question again in the next pargraph hoping
 > > someone today will be able to help me with this problelm.  I am a new
 > > ITK user, so my question should be trivial for those who use ITK's
 > > registration tools.  Please help!! :>  Thanx!!   ----- Original
 > > Message ----- *From:* Grace Chen <mailto:Grace.Chen at swri.ca> *To:*
 > > insight-users at itk.org <mailto:insight-users at itk.org> *Sent:* Thursday,
 > > September 01, 2005 12:00 PM *Subject:* [Insight-users] 3D image
 > > registration
 > > Hi there,  Good day!   We are using ITK for registering 2D images for
 > > our current project.  It's working very nicely for correcting most of
 > > the misalignment in our data.  However, we noticed
 > > out-of-plant movement in our image data, so we want to extend our
 > > project to perform 3D rigid registration.  The data I have is the MR
 > > scan for the brain.  The dimension of the image is (256, 256, 8), and
 > > the spacing is (0.93mm, 0.93mm, 7mm).
 > > So, our problem is: since the space between neighbor slices is so
 > > distant, can the ITK
 > > registration program perform 3D registration properly on this type of
 > > data? ...or do we have to
 > > use some additional VTK/ITK tools to cope with that?   If we can use
 > > ITK to register our data, can you recommand the registration component
 > > good for our data?   Any help is greatly appreciated!! :>   Have a
 > > great day!   Grace
 > >
 >
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