[Insight-users] MR orientation problem

[Taru S]

Never mind, I fixed the problem.

Taru
On Fri, Mar 18, 2011 at 10:11 AM, Taru S <twrkmail at gmail.com> wrote:

> Hello,
>
> I am new to ITK and need your help with my MR orientation. I have generated
> a surface model by segmenting an MR volume generated using ITK from Axial MR
> dicom slices.
>
> However, when I view the Axial dicom slices they are not correctly oriented
> (please see the attachment). The sagittal and coronal views in the figure
> are generated from axial reslicing. As a result of this mis-orientation, the
> surface model doesn't appear aligned with the slices.
>
> The direction cosines of my MR dicoms are not orthogonal/identity matrix.
> The output after applying these direction cosines to my input dicom
> (Resample image filter )set doesn't seem to make any difference.
>
> Using identity matrix in place of the direction cosines yields black
> images. I am confused because the images don't appear tilted when viewed
> using Snap even with Oblique orientation mode.
>
> I will really appreciate your help in resolving this issue.
>
> Thank you,
> Taru
>
> Below is some of the information regarding my input MR dicoms:
> "
> Input
> Image (00000000039FFC80)
>   RTTI typeinfo:   class itk::Image<short,3>
>  ...
>   LargestPossibleRegion:
>     Dimension: 3
>     Index: [0, 0, 0]
>     Size: [512, 512, 70]
>   BufferedRegion:
>     Dimension: 3
>     Index: [0, 0, 0]
>     Size: [512, 512, 70]
>   RequestedRegion:
>     Dimension: 3
>     Index: [0, 0, 0]
>     Size: [512, 512, 70]
>   Spacing: [0.2734, 0.2734, 1.69992]
>   Origin: [-135.322, -47.2921, -102.134]
>   Direction:
> 0.986099 0.164923 -0.0200774
> -0.165591 0.965578 -0.200612
> -0.0137026 0.201148 0.979465
>
>   IndexToPointMatrix:
>   0.269599 0.0450899 -0.03413
> -0.0452726 0.263989 -0.341024
> -0.00374629 0.0549939 1.66501
>
>   PointToIndexMatrix:
>   3.60681 -0.605614 -0.0501069
> 0.60329 3.53173 0.735726
> -0.0118108 -0.118012 0.576182
> "
>
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