Projects:RegistrationLibrary:RegLib C35

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v3.6.1 Slicer Registration Library Case #35: Mouse Colon Brain MRI

Input

fixed image 1/target MRI mouse 1		moving image MRI mouse 2

Modules

• Slicer 3.6.1 recommended modules: SurfaceRegistration, Transforms (manual registration), Fast Marching Segmentation, Histogram Matching, Model Maker,

Objective / Background

Aim is to register the two MRIs such that the colon aligns.

Download

• DATA
  • Registration Library Case 35 (Data, zip file 46 MB)
• See detailed pipeline with parameter settings below

Keywords

MRI, colon, mouse, masking, non-human, non-rigid,manual, unsolved

Input Data

• reference/fixed MRI: 0.12 x 0.12 x 0.1 mm, 512 x 512 x 94
• moving MRI: 0.09 x 0.09 x 0.1 mm, 512 x 512 x 94

Registration Challenges

• The image content to be registered is less than 10% of the total image and of low energy (close to background);
• there's large portions of the colon for which no matching/corresponding structures exist, i.e. a straightforward one-one mapping is not avail.
• other landmarks (kidneys etc.) are very different in position and size

Key Strategies

• This is a challenge case and currently unsolved. Best hopes are combinations of manual, fiducial and surface-based registration
• Slicer 3.6.1 recommended modules:
  • Surface Registration
  • Plastimatch

Registration Results

very rough surface models of colon help visualize misalignment
original, not registered
after surface registration (rigid) + manual correction