2011 Summer Project Week DTI PairWise Registration

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  Projects List

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  Screenshot

Key Investigators

• UNC: Clement Vachet, Francois Budin, Martin Styner
• IOWA: Joy Matsui, Mark Scully, Hans Johnson

Objective

We are developing a pipeline which performs DTI pair-wise registration. The goal is to create a user-friendly Slicer3 extension which performs such a registration automatically, instead of running Slicer3 modules individually (dtiprocess, BRAINSFit, BRAINSDemonWarp, ResampleDTI Volume...). Such a wrapper will generate and use scalar features (e.g FA,MD) to drive the registration between two DTI images.

Approach, Plan

Our approach is to develop a C++ based Slicer3 extension, which writes a BatchMake script, in order to call external modules as threads to perform individual steps of the pipeline.

Our plan for the project week is to develop/enhance the module.

Progress

• Command line / UI via GenerateCLP (cf. screenshot)
• Main BatchMake script written
• Individual steps called as threads via BatchMake
• Improvement on registration: Affine + warping (BRAINSDemonWarp)
• Further improvement / testing needs to be achieved...

 bin/DWIProcessPipeline  [--returnparameterfile <std::string>]
                          [--processinformationaddress <std::string>]
                          [--xml] [--echo] [--runChoice <Do_not_run|Run
                          |Condor>] [--registration <MD|FA>]
                          [--interpolation <linear|bs|ws>] [--copy]
                          [--nolog] [--skullStrip] [--scale] [--computeAD]
                          [--computeRD] [--computeColorFA] [--computeMD]
                          [--computeFA] [--initialTransform <std::string>]
                          [-f <std::string>] [--createIDWI] [--createB0]
                          [--manualOrientation <std::string>]
                          [--computeOrientation] [--imNN2 <std::string>]
                          [--imNN1 <std::string>] [--im3 <std::string>]
                          [--im2 <std::string>] [--im1 <std::string>]
                          [--rootName <std::string>] [--outputDir
                          <std::string>] [--templateType <DTI|scalar>] [-t
                          <std::string>] [--inputType <DWI|DTI|scalar>]
                          [-i <std::string>] [--] [--version] [-h]

Delivery Mechanism

This work will be delivered to the NA-MIC Kit as a Slicer extension.

References