Surface Labeling via Multiple Atlases 1.5 alpha (SurfaceMultiAtlasLabel)

IACL.Labeling

[edu.jhu.ece.iacl.plugins.labeling.MedicAlgorithmMultiAtlasSurfaceLabeling]

Description

Uses N Atlases to label a target image with the same labels

Notes

This algorithm is used to label a volume by registering multiple atlases to the same target via multiple calls of single channel VABRA.

Inputs

Name Default Type File Extension Description
Target Surface to Label nullSurface Supported Formats Target Surface to Label
Target Volume for Labels Target Volume for LabelsVolume
  • dim{X,Y,Z,1}
  • type{any}
Supported Formats Target Volume for Labels
Atlas Description NoneFile - Atlas Description
Output Deformed Atlas Labels falseBoolean - Output Deformed Atlas Labels
Output Registered Atlases falseBoolean - Output Registered Atlases
Output Deformation Fields falseBoolean - Output Deformation Fields
Configuration /home/VANDERBILT/landmaba/jist/build/jist-bin-modules/edu/jhu/ece/iacl/algorithms/vabra/config.xmlFile - Configuration
Type for Channel 1 0:TriLinearOption
  1. 0:TriLinear
  2. 1:NNI
 - Type for Channel 1
Type for Channel 2 0:TriLinearOption
  1. 0:TriLinear
  2. 1:NNI
 - Type for Channel 2
Type for Channel 3 0:TriLinearOption
  1. 0:TriLinear
  2. 1:NNI
 - Type for Channel 3
Type for Remaining Channels (Use Index from Options Above) (Optional) NumberCollection - Type for Remaining Channels (Use Index from Options Above)
Percentile of Image Above Robust Maximum (0.0-1.0) 0Double - Percentile of Image Above Robust Maximum (0.0-1.0)
Percentile of Image Below Robust Minimum (0.0-1.0) 0Double - Percentile of Image Below Robust Minimum (0.0-1.0)
Number of Bins used in Histogram 64Integer - Number of Bins used in Histogram
First Run 9-DOF Affine Registration (FLIRT) trueBoolean - First Run 9-DOF Affine Registration (FLIRT)
Initialization Type PerformanceOption
  1. Performance
  2. Truth
 - Initialization Type
Regularization 0Float - Regularization
Kernel Size 2Float - Kernel Size
MRF Solver ICMOption
  1. ICM
  2. RL
 - MRF Solver
Max Delta for Convergence 1.0E-7Float - Max Delta for Convergence
Max Iterations 35Integer - Max Iterations
Data Offset 0Integer - Data Offset

Outputs

Name Type File Extension Description
CLEANED Label Results for Target Surface vtk CLEANED Label Results for Target
STAPLE Label Results for Target Surface vtk STAPLE Label Results for Target
Deformed Atlas Labels (Intermediate Result) (Optional) VolumeCollection - Deformed Atlas Labels (Intermediate Result)
Registered Atlases (Intermediate Result) (Optional) VolumeCollection - Registered Atlases (Intermediate Result)
Deformation Fields (Intermediate Result) (Optional) VolumeCollection - Deformation Fields (Intermediate Result)
Transformation Matrices (Intermediate Result) (Optional) FileCollection - Transformation Matrices (Intermediate Result)
Deformed Atlas Labels (Optional) SurfaceCollection - Deformed Atlas Labels
Execution Time Performance - Execution Time

Last modified by VANDERBILT\landmaba on Thu, 21 Jan 2010 14:27:27 CST