Difference between revisions of "Projects:RegistrationLibrary:RegLib C37"

From NAMIC Wiki
Jump to: navigation, search
Line 28: Line 28:
 
*reference/fixed : T1 SPGR , 1x1x1 mm voxel size, 256x256x176 ,sagittal
 
*reference/fixed : T1 SPGR , 1x1x1 mm voxel size, 256x256x176 ,sagittal
 
*moving: T1 SPGR , 1x1x1 mm voxel size, 256x256x176 ,sagittal
 
*moving: T1 SPGR , 1x1x1 mm voxel size, 256x256x176 ,sagittal
 +
 +
=== Overall Strategy ===
 +
:#run rigid/affine registration (BRAINSfit) with "CenterOfHeadAlign" initialization
 +
:#run 7x7x7 nonrigid regista=ration (BRAINSfit BSpline) using the above affine as input
 +
:#alternative: run skull stripper module on both images to generate masks for the nonrigid registration
 +
 +
=== Procedures ===
 +
*'''Phase I:  Register Rigid/Affine'''
 +
#open Registration : ''BrainsFit'' module (presets: BRAINSfit_Xf1 or _Xf2
 +
##Registration Phases:
 +
###select/check ''Include Affine registration phase''
 +
###for affine also select/check ''Include Scale Versor 3D'' and  ''Include Affine'' registration phase''
 +
##Registration Parameters: increase ''Number Of Samples'' to 200,000
 +
###select a new transform "Linear Transform", rename to "Xf1_affine"
 +
##Leave all other settings at default
 +
*'''Phase I:  Register BSpline'''
 +
###select a new volume "Output Image Volume'', rename to "DTI_base_Xf1"
 +
##Registration Parameters: increase ''Number Of Samples'' to 200,000
 +
##Registration Parameters: set  ''Number Of Grid Subdivisions'' to 7x7x7
 +
##Leave all other settings at default
  
 
=== Registration Results===
 
=== Registration Results===

Revision as of 21:15, 3 March 2011

Home < Projects:RegistrationLibrary:RegLib C37

Back to ARRA main page
Back to Registration main page
Back to Registration Case Library

v3.6.1 Slicer3-6Announcement-v1.png Slicer Registration Library Case #37:
Intra-subject Brain MRI: T1 Tumor Growth / Resection Assessment

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

Modules

Slicer 3.6.1 recommended modules:

Objective / Background

This is a typical case of change assessment.

Keywords

MRI, brain, head, intra-subject, T1, tumor, change assessment

Input Data

  • reference/fixed : T1 SPGR , 1x1x1 mm voxel size, 256x256x176 ,sagittal
  • moving: T1 SPGR , 1x1x1 mm voxel size, 256x256x176 ,sagittal

Overall Strategy

  1. run rigid/affine registration (BRAINSfit) with "CenterOfHeadAlign" initialization
  2. run 7x7x7 nonrigid regista=ration (BRAINSfit BSpline) using the above affine as input
  3. alternative: run skull stripper module on both images to generate masks for the nonrigid registration

Procedures

  • Phase I: Register Rigid/Affine
  1. open Registration : BrainsFit module (presets: BRAINSfit_Xf1 or _Xf2
    1. Registration Phases:
      1. select/check Include Affine registration phase
      2. for affine also select/check Include Scale Versor 3D and Include Affine registration phase
    2. Registration Parameters: increase Number Of Samples to 200,000
      1. select a new transform "Linear Transform", rename to "Xf1_affine"
    3. Leave all other settings at default
  • Phase I: Register BSpline
      1. select a new volume "Output Image Volume, rename to "DTI_base_Xf1"
    2. Registration Parameters: increase Number Of Samples to 200,000
    3. Registration Parameters: set Number Of Grid Subdivisions to 7x7x7
    4. Leave all other settings at default

Registration Results

unregistered
 original unregistered
rigid
affine
rigid registered affine registered
BSpline (7x7x7) unmasked
BSpline (7x7x7) masked
nonrigid registered (7x7x7 BSpline unmasked) nonrigid registered (7x7x7 BSpline masked)

Download


Retrieved from "https://www.na-mic.org/w/index.php?title=Projects:RegistrationLibrary:RegLib_C37&oldid=64995"