Difference between revisions of "Documentation:Nightly:Registration:RegistrationLibrary:RegLib C38"
From Slicer Wiki
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+ | [[Documentation/Nightly/Registration/RegistrationLibrary|Back to Registration Library]] <br> | ||
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= Slicer Registration Library Case 38: TBI = | = Slicer Registration Library Case 38: TBI = | ||
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== Modules used == | == Modules used == | ||
− | *[[Documentation/Nightly/Modules/ | + | *[[Documentation/Nightly/Modules/BRAINSFit|''General Registration (BRAINS)'' module]] |
== Download (from NAMIC MIDAS) == | == Download (from NAMIC MIDAS) == | ||
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#Load all datasets via drag&drop or via "AddData / AddVolume" ... do not center the volumes, since they have reasonable alignment at the outset | #Load all datasets via drag&drop or via "AddData / AddVolume" ... do not center the volumes, since they have reasonable alignment at the outset | ||
#the registration procedure below is identical for all other scans in the sequence, i.e. just replace the ''Moving Volume'' and the ''Slicer Linear Transform", everything else can stay at default | #the registration procedure below is identical for all other scans in the sequence, i.e. just replace the ''Moving Volume'' and the ''Slicer Linear Transform", everything else can stay at default | ||
− | #open the [ | + | #open the [[Documentation/Nightly/Modules/BRAINSFit|''General Registration (BRAINS)'' module]] |
##''Fixed Image Volume'': T1 | ##''Fixed Image Volume'': T1 | ||
##''Moving Image Volume'': T2 | ##''Moving Image Volume'': T2 | ||
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##leave all other settings at defaults | ##leave all other settings at defaults | ||
##click: Apply; runtime < 10 sec (MacPro QuadCore 2.4GHz) | ##click: Apply; runtime < 10 sec (MacPro QuadCore 2.4GHz) | ||
− | #this will generate the alignment transform. Note that the Slicer4.1 version of BRAINS registration does '''not''' automatically place the moving volume inside the result transform, as it did for Slicer 3.6. In order to see the result, you must either go to the [ | + | #this will generate the alignment transform. Note that the Slicer4.1 version of BRAINS registration does '''not''' automatically place the moving volume inside the result transform, as it did for Slicer 3.6. In order to see the result, you must either go to the [[Documentation/Nightly/Modules/Data|''Data'' module]]and drag the moving volume inside the transform node, or select to generate a resampled ''Output Volume'', as done above. The demo movies you can download here show how to do this. |
== Registration Results== | == Registration Results== | ||
[[Image:RegLib_C38_unregistered.gif|300px|unregistered]] unregistered <br> | [[Image:RegLib_C38_unregistered.gif|300px|unregistered]] unregistered <br> | ||
[[Image:RegLib_C38_registered.gif|300px|registered]] registered | [[Image:RegLib_C38_registered.gif|300px|registered]] registered |
Revision as of 22:23, 1 July 2013
Home < Documentation:Nightly:Registration:RegistrationLibrary:RegLib C38Contents
Slicer Registration Library Case 38: TBI
Input
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T1pre | FLAIR | T1post | coronal T2 | SWI | EP50 | EP75 | EP100 |
Modules used
Download (from NAMIC MIDAS)
- RegLib_C38.mrb (input data, Slicer mrb file. 42 MB).
Video Screencasts
Key Strategies
- we register all the scans within each exam to the T1
- we limit registration degree of freedom to 6 DOF (rigid transformation only).
Procedure
- Load all datasets via drag&drop or via "AddData / AddVolume" ... do not center the volumes, since they have reasonable alignment at the outset
- the registration procedure below is identical for all other scans in the sequence, i.e. just replace the Moving Volume and the Slicer Linear Transform", everything else can stay at default
- open the General Registration (BRAINS) module
- Fixed Image Volume: T1
- Moving Image Volume: T2
- Output Settings:
- Slicer BSpline Transform": none
- Slicer Linear Transform: create new transform, rename to "Xf1_T2"
- Output Image Volume: none
- Registration Phases: check box for Rigid only
- leave all other settings at defaults
- click: Apply; runtime < 10 sec (MacPro QuadCore 2.4GHz)
- this will generate the alignment transform. Note that the Slicer4.1 version of BRAINS registration does not automatically place the moving volume inside the result transform, as it did for Slicer 3.6. In order to see the result, you must either go to the Data moduleand drag the moving volume inside the transform node, or select to generate a resampled Output Volume, as done above. The demo movies you can download here show how to do this.