Projects:RegistrationLibrary:RegLib C14

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v3.6.1 Slicer3-6Announcement-v1.png Slicer Registration Library Case #14:
Intra-subject Brain PET-MRI with MRI orientation adjustment

Input

this is the fixed reference image. All images are aligned into this space lleft this indicates the moving image that determines the registration transform
fixed image/target moving image
===Objective / Background ===

Image fusion.

Keywords

PET-MRI, brain, intra-subject, image fusion

Input Data

  • reference/fixed : baseline MRI: 0.97 x 0.97 x 3.27 mm , PET: 4.7 x 4.7 x 3.3 mm
  • moving: PET: 4.1 x 4.1 x 5 mm
    • axial, fluorodeoxyglucose
      128 x 128 x 35
      4.29 x 4.29 x 4.25 mm
    • coronal T1w
      256 x 256 x 79
      0.86 x 0.86 x 2.5 mm

Registration Results

Download


Discussion: Registration Challenges

  • the original DICOM files of the MRI have image orientation data stripped. Hence the volume does not load in correct orientation and needs to be adjusted
  • the two series have different voxel sizes
  • image content and resolution in PET is low

Discussion: Key Strategies

  • we use the Volumes module to adjust the MRI voxel size based on the info in the DICOM header
  • we use the Transforms module to reorient the MRI along the proper axes
    • the aspect ratio we correct via the "Volumes" module. The correct slice thickness we obtain from the DICOM header via the browser displayed when selecting "Add Volume"
    • the "Transforms" module is used to correct orientation. We enter manual rotations of 90 and 180 degrees around the LR (left-right) and IS (inferior-superior) axes, respectively
    • the corrected MRI volume is resampled in the Data module via "harden transforms"
  • Register Images is used to automatically align the PET with the MRI. We choose mutual information ("MI") as the criterion and a 5% sampling rate. We request an affine transform to correct for small distortion differences between the PET and the MRI

Acknowledgments

Our thanks to the University of Western Ontario for providing this example case.