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[[Projects:RegistrationDocumentation:UseCaseInventory|Back to Registration Use-case Inventory]] <br>
 
[[Projects:RegistrationDocumentation:UseCaseInventory|Back to Registration Use-case Inventory]] <br>
  
==Slicer Registration Library Case #16: Manual alignment of intra-subject Brain MRI ==
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==<small>v3.6.1</small> [[Image:Slicer3-6Announcement-v1.png‎|150px]] Slicer Registration Library Case #16: Manual alignment of intra-subject Brain MRI==
{| style="color:#bbbbbb; background-color:#333333;" cellpadding="10" cellspacing="0" border="0"
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=== Input ===
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{| style="color:#bbbbbb; " cellpadding="10" cellspacing="0" border="0"
 
|[[Image:RegLib_C16_Brain0.png|200px|lleft|this is the fixed reference image. All images are aligned into this space]]  
 
|[[Image:RegLib_C16_Brain0.png|200px|lleft|this is the fixed reference image. All images are aligned into this space]]  
|[[Image:Arrow_left_gray.jpg|100px|lleft]]  
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|[[Image:RegArrow_Affine.png|100px|lleft]]  
 
|[[Image:RegLib_C16_Brain1.png|200px|lleft|this is the moving image. The transform is calculated by matching this to the reference image]]
 
|[[Image:RegLib_C16_Brain1.png|200px|lleft|this is the moving image. The transform is calculated by matching this to the reference image]]
|align="left"|LEGEND<br>
 
[[Image:Button_red_fixed.jpg|20px|lleft]]  this indicates the reference image that is fixed and does not move. All other images are aligned into this space and resolution<br>
 
[[Image:Button_green_moving.jpg|20px|lleft]]  this indicates the moving image that determines the registration transform.  <br>
 
|-
 
|[[Image:Button_red_fixed.jpg|40px|lleft]]  T1 SPGR
 
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|[[Image:Button_green_moving.jpg|40px|lleft]] T1 SPGR
 
 
|-
 
|-
|0.9375 x 0.9375 x 1.4 mm<br> 256 x 256 x 112<br>RAS
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|fixed image/target
 
|
 
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|0.9375 x 0.9375 x 1.2 mm<br> 256 x 256 x 130<br>RAS
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|moving image
 
|}
 
|}
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*fixed: 1mm isotropic;256 x 256 x 146
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*moving: 1.2mm isotropic; 256 x 256 x 116
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=== Modules ===
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*[https://www.slicer.org/wiki/Modules:Transforms-Documentation-3.6 '''Transforms''' module]
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===Objective / Background ===
 
===Objective / Background ===
This is a classic case of change assessment. We want to know if the tumor changed since last exam.
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This is an example illustrating the use of the manual registration tools.
 
=== Keywords ===
 
=== Keywords ===
 
MRI, brain, head, intra-subject, FLAIR, T1, defacing
 
MRI, brain, head, intra-subject, FLAIR, T1, defacing
 
===Input Data===
 
*[[Image:Button_red_fixed_white.jpg|20px]]reference/fixed : T1 SPGR , 1x1x1 mm voxel size, sagittal, RAS orientation.
 
*[[Image:Button_green_moving_white.jpg|20px]] moving: T2 FLAIR 1.2x1.2x1.2 mm voxel size, sagittal, RAS orientation.
 
  
 
=== Registration Results===
 
=== Registration Results===
 
{| style="color:#bbbbbb; background-color:#333333;" cellpadding="10" cellspacing="0" border="0"
 
{| style="color:#bbbbbb; background-color:#333333;" cellpadding="10" cellspacing="0" border="0"
|[[Image:RegLib01_GifAnim_reg.gif|200px|left|after orientation]]  
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|[[Image:RegLib_C16_NoReg.gif|left|500px|original unregistered]]  
|[[Image:RegLib01_ColorAnim.gif|200px|left|before/after registration, indiv. images in red/cyan, match in gray]]
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|-
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|[[Image:RegLib_C16_Reg.gif|left|500px|after manual alignment]]
 
|}
 
|}
  
 
===Download ===
 
===Download ===
*'''[[Media:RegLib_Case_01_TumorGrowth.zip‎|download entire package  <small> (Data,Presets,Tutorial, Solution, zip file 33.7 MB) </small>]]'''
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*'''[[Media:RegLib_C16_ManualRegBrain.zip|download entire package  <small> (Data+Tutorial, zip file 18 MB) </small>]]'''
**[[Media:RegLib_C01_Data_TumorGrowth.zip|download image dataset only  <small>(NRRD, 10.7 MB, filename: RegLib_C01_Data_TumorGrowth.zip) </small>]]
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*[[Media:RegLib_C16_ManualRegBrain_Data.zip|download image dataset only  <small>(zip file, 15 MB) </small>]]  
**[[Media:RegLib_Case_01_NRRD_TumorGrowth.zip|download image dataset only  <small>(NRRD, 10.7 MB, filename: RegLib_Case_01_NRRD_TumorGrowth.zip) </small> ]]  
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*[[Media:RegLib_C16_Tutorial_ManualRegistration.ppt‎|download power point tutorial <small>(PowerPoint file, 3 MB) </small>]]
***[[Media:RegLib_C01_PPTTutorial_TumorGrowth.ppt.zip‎|download power point tutorial <small>(zip file, 2.8 MB, filename: RegLib_C01_PPTTutorial_TumorGrowth.ppt.zip) </small>]]
 
  
  

Latest revision as of 18:07, 10 July 2017

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v3.6.1 Slicer3-6Announcement-v1.png Slicer Registration Library Case #16: Manual alignment of intra-subject Brain MRI

Input

this is the fixed reference image. All images are aligned into this space lleft this is the moving image. The transform is calculated by matching this to the reference image
fixed image/target moving image
  • fixed: 1mm isotropic;256 x 256 x 146
  • moving: 1.2mm isotropic; 256 x 256 x 116

Modules

Objective / Background

This is an example illustrating the use of the manual registration tools.

Keywords

MRI, brain, head, intra-subject, FLAIR, T1, defacing

Registration Results

original unregistered
after manual alignment

Download