Difference between revisions of "Projects:RegistrationLibrary:RegLib C35"
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=== Input === | === Input === | ||
{| style="color:#bbbbbb; " cellpadding="10" cellspacing="0" border="0" | {| style="color:#bbbbbb; " cellpadding="10" cellspacing="0" border="0" | ||
| − | |[[Image: | + | |[[Image:RegLibC35_Thumb1.png|150px|lleft|case A]] |
|[[Image:RegArrow_NonRigid.png|100px|lleft]] | |[[Image:RegArrow_NonRigid.png|100px|lleft]] | ||
| − | |[[Image: | + | |[[Image:RegLibC35_Thumb2.png|150px|lleft|case B]] |
|- | |- | ||
|fixed image 1/target<br>MRI mouse 1 | |fixed image 1/target<br>MRI mouse 1 | ||
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=== Modules === | === Modules === | ||
| − | *'''Slicer 3.6.1 recommended modules:''' [ | + | *'''Slicer 3.6.1 recommended modules:''' [https://www.slicer.org/wiki/Modules:PythonSurfaceICPRegistration-Documentation-3.6 '''SurfaceRegistration'''], [https://www.slicer.org/wiki/Modules:Transforms '''Transforms (manual registration)'''], [https://www.slicer.org/wiki/Modules:FastMarchingSegmentation-Documentation-3.6 '''Fast Marching Segmentation'''], [https://www.slicer.org/wiki/Modules:HistogramMatching-Documentation-3.6 '''Histogram Matching'''], [https://www.slicer.org/wiki/Modules:ModelMaker-Documentation-3.6 '''Model Maker'''], |
===Objective / Background === | ===Objective / Background === | ||
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*DATA | *DATA | ||
**[[Media:RegLib_C35_Data.zip|'''Registration Library Case 35 '''<small> (Data, zip file 46 MB) </small>]] | **[[Media:RegLib_C35_Data.zip|'''Registration Library Case 35 '''<small> (Data, zip file 46 MB) </small>]] | ||
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=== Keywords === | === Keywords === | ||
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===Registration Challenges=== | ===Registration Challenges=== | ||
*The image content to be registered is less than 10% of the total image and of low energy (close to background); | *The image content to be registered is less than 10% of the total image and of low energy (close to background); | ||
| + | [[Image:RegLib_C35_Histogram.png|150px|lleft|histogram of image content: target structure (colon, red) is very small amount of total image energy, making intensity-based automated approach unlikely to succeed]] | ||
*there's large portions of the colon for which no matching/corresponding structures exist, i.e. a straightforward one-one mapping is not avail. | *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 | *other landmarks (kidneys etc.) are very different in position and size | ||
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*This is a '''challenge case''' and currently unsolved. Best hopes are combinations of manual, fiducial and surface-based registration | *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: | *'''Slicer 3.6.1 recommended modules: | ||
| − | ** [ | + | ** [https://www.slicer.org/wiki/Modules:PythonSurfaceICPRegistration-Documentation-3.6 Surface Registration] |
| − | ** Plastimatch | + | ** [https://www.slicer.org/wiki/Modules:Plastimatch Plastimatch] |
| − | |||
=== Registration Results=== | === Registration Results=== | ||
| − | [[Image: | + | [[Image:RegLibC35_Models.png |200px| very rough surface models of colon help visualize misalignment]] very rough surface models of colon help visualize misalignment<br> |
| − | [[Image: | + | [[Image:RegLibC35_unreg.gif |200px|original unregistered]] original, not registered<br> |
| − | [[Image: | + | [[Image:RegLibC35_reg.gif |200px| after surface registration (rigid) + manual correction]] after surface registration (rigid) + manual correction<br> |
<br> | <br> | ||
Latest revision as of 18:07, 10 July 2017
Home < Projects:RegistrationLibrary:RegLib C35Back to ARRA main page
Back to Registration main page
Back to Registration Use-case Inventory
Contents
v3.6.1 
Slicer Registration Library Case #35: Mouse Colon Brain MRI
Input
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|
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| 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
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:
Registration Results
very rough surface models of colon help visualize misalignment
original, not registered
after surface registration (rigid) + manual correction
