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Comprehensive Tutorial on Statistical Shape Analysis with ShapeWorks

This tutorial provides an in-depth overview of statistical shape analysis using ShapeWorks, a powerful tool for analyzing complex shape data. Conducted by experts Shireen Elhabian, Prateep Mukherjee, and Ross Whitaker on January 4th, 2014, the session covers essential components of the Correspondence Pipeline, including ShapeWorksGroom and ShapeWorksRun. Instructions for setting up and connecting the ShapeWorks Server, as well as configuring projects and analyzing osteochondromas across various age groups, are provided. Ideal for researchers and students in computational modeling and medical image analysis.

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Comprehensive Tutorial on Statistical Shape Analysis with ShapeWorks

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  1. Statistical Shape AnalysisTutorial Shireen Elhabian, Prateep Mukherjee and Ross Whitaker Saturday, January 4th , 2014

  2. Correspondence Pipeline

  3. Main Components SandBox ShapeWorksGroom ShapeWorksRun Internet Python cibc2.sci.utah.edu = shapeworks-server.sci.utah.edu ShapeWorksServer SSL connection ShapeWorksBroker cibc3.sci.utah.edu SandBox SSL connection ShapeWorksGroom ShapeWorksRun Python SCI File System: All projects are stored here ShapeWorksServer localhost Seg3D 2.1.1 ShapeWorksView ShapeWorks Server ShapeWorks Broker ShapeWorks Client

  4. Let’s Get Started • Copy all the software given in the USB stick at a convenient location in your computer • Click on start menu and type ‘cmd.exe’ to start a command prompt • First, start ShapeWorks Broker ShapeWorksBroker.exe broker_address=localhost \ broker_rootdir=c:\shapeworks_run • Make note of password generated. It will be required to start ShapeWorks Client • Click on start and start another command prompt • Start ShapeWorks Server ShapeWorksServer.exe broker_address=localhost\ shapeworks_dir=c:\Shapeworks * Refer to lab document(Section 2) for more instructions

  5. Connecting to a Server Enter the username and password created during running the broker

  6. Correspondence Pipeline

  7. Configuring a Project

  8. Configuring a Project

  9. Configuring a Project

  10. Configuring a Project

  11. ShapeWorksViewMultiple Osteochondromas Group mean differences for tibia+fibula – young Group mean differences for femur – young normal mutated normal mutated

  12. ShapeWorksViewMultiple Osteochondromas Group mean differences for tibia+fibula– middle-aged Group mean differences for femur – middle-aged normal mutated normal mutated

  13. ShapeWorksViewMultiple Osteochondromas Group mean differences for tibia+fibula– old Group mean differences for femur – old normal mutated normal mutated

  14. ShapeWorksViewCAM-FAI Characterization

  15. ShapeWorksViewLeft Atrial Appendage • The LAA of two groups was segmented, one group with no history of having stroke while the other group has evident history of having stroke. Group 1: no history of stoke Group 2: history of stoke Group difference (group 1 to group 2)

  16. Thanks for your attention

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