[Insight-users] Liver registration in MRI slices

[Matt McCormick]

Hi Cristina,

It is possible to just specify the liver for the registration with
SetFixedImageRegion [1].

Hope this helps,
Matt

[1]  http://www.itk.org/Doxygen/html/classitk_1_1ImageRegistrationMethod.html#abfd3451ef972f883682ef7b530cdbdb4

On Mon, Jul 29, 2013 at 9:05 AM, Lopez Saratxaga, Cristina
<Cristina.Lopez at tecnalia.com> wrote:
> Dear all,
>
>
>
> I’ve several sets of MRI images, each one with different sequences and
> multiple slices within each.  You can see attached an example of a slice
> (axial view).
>
>
>
> Our goal is to produce an automatic segmentation of the liver (located at
> the left side) taking into consideration the information not only of the
> different slices of one sequence, but the information contained in various
> sequences in order to create a 3D model of the liver. One colleague is
> already working on in, but in order to make sure that the segmentation is
> done as best as possible, we need to perform a registration of the slices
> through the various sequences.
>
>
>
> At first I tried with basic transformation as the Affine of Deformable,
> applying diverse metric and optimizer, but the segmentation didn’t improve
> in any respect. These transformations work fine, but the problem is that the
> registration is mainly made in the contours of the image (2D registration
> performed better than 3D registration). What I would like, would be to just
> focus in the region of the slice where the liver should be located and focus
> the registration on the liver, however, I’m afraid that I don’t know how to
> perform this.
>
>
>
> I’ve read something about registrations based of features. The landmark
> based registration sounds interesting but it seems that it’s necessary to
> define a set of reference points both if the fixed and the moving image,
> something that I don’t have. At the most, I could have some approximate
> reference points for the fixed image, but not for the moving one.
> Additionally, I’ve also read something about masks and ROIs. I tried the
> example ImageRegistration12 with a binary mask, however, the results were
> not as expected (maybe I was not using well the mask).
>
>
>
> At this time, I’m a bit lot with this problem and I really don’t know how to
> proceed with the registration problem, so any idea on how to deal with this
> problem will be really appreciated!
>
> Many thanks in advance for your Help!!
>
>
>
> Kind regards,
>
>
>
> Cristina
>
>
>
>
> _____________________________________
> 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.php
>
> 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
>