3DVIEWNIX 1.1 User Manual

This manual is for all those people who want to start using the 3DVIEWNIX Software System. The contents of the manual are listed below. Please look at the 3DVIEWNIX Tutorials also, which describe some of the basic functionalities of 3DVIEWNIX. If you have questions regarding 3DVIEWNIX, please send us a mail at : Vhelp@mipg.upenn.edu. All bug reports should be sent to : Vbugs@mipg.upenn.edu.

Introduction

• 1.1 How To Use This Document
  

• 2.1 Installing The 3DVIEWNIX System Files
  
• 2.2 Installing 3DVIEWNIX Data Files
  
• 2.3 Running 3DVIEWNIX
  
• 2.4 3DVIEWNIX Parameters
  

• 3.1 Data-Related
  
• 3.2 Operation-Related
  

• 4.1 Screen Layout
  
• 4.2 Use of Mouse
  
• 4.3 The Menu System
  
• 4.4 Commands, Buttons, Switches, Options
  
• 4.5 Scales
  
• 4.6 Tablets
  

• 5.1 Data Files
  
• 5.2 Communication Files
  

• 6.1 PORT-DATA
  
• 6.2 PREPROCESS
  
  • 6.2.1 Scene Operations
    
  • 6.2.2 Structure Operations
    
• 6.3 VISUALIZE
  
  • 6.3.1 Slice
    
  • 6.3.2 Surface
    
  • 6.3.3 Volume
    
• 6.4 MANIPULATE
  
• 6.5 ANALYZE
  
  • 6.5.1 Scene
    
  • 6.5.2 Structure
    
• 6.6 MISCELLANEOUS
  
• 6.7 Static Options
  

• 7.1 Common Commands
  
• 7.2 Common Options
  
• 7.3 Common Static Options
  

• 8.1 In
  
  • 8.1.1 Summary of Commands
    
  • 8.1.2 Commands
    
    • 8.1.2.1 FromACR-NEMA
      
    • 8.1.2.2 EasyHeader
      
    • 8.1.2.3 CreateFileHeader
      
    • 8.1.2.4 ModifyFileHeader
      
    • 8.1.2.5 Retrieve
      
• 8.2 Out
  
  • 8.2.1 Backup
    
• 8.3 ChangeDefaultTape
  

• 9.1 SceneOperations
  
  • 9.1.1 Summary of Commands
    
  • 9.1.2 Common Options
    
  • 9.1.3 Commands
    
    • 9.1.3.1 Input
      
    • 9.1.3.2 VOI
      
    • 9.1.3.3 Interpolate
      
    • 9.1.3.4 Filter
      
    • 9.1.3.5 Segment
      
    • 9.1.3.6 Classify
      
• 9.2 StructureOperations
  
  • 9.2.1 Summary of Commands
    
  • 9.2.2 Commands
    
    • 9.2.2.1 SurfaceNormal
      
    • 9.2.2.2 MergeStructures
      
    • 9.2.2.3 StructureToStructure
      
    • 9.2.2.4 ToScene
      

• 10.1 Slice
  
  • 10.1.1 Summary of Commands
    
  • 10.1.2 Common Options
    
  • 10.1.3 Commands
    
    • 10.1.3.1 Input
      
    • 10.1.3.2 Montage
      
    • 10.1.3.3 Cycle
      
    • 10.1.3.4 Reslice
      
• 10.2 SURFACE
  
  • 10.2.1 Summary of Commands
    
  • 10.2.2 Common Options
    
  • 10.2.3 Commands
    
    • 10.2.3.1 Input
      
    • 10.2.3.2 View
      
    • 10.2.3.3 Measure
      
    • 10.2.3.4 CreateMovie
      
• 10.3 Volume
  
  • 10.3.1 Summary of Commands
    
  • 10.3.2 Common Options
    
  • 10.3.3 Commands
    
    • 10.3.3.1 Input
      
    • 10.3.3.2 View
      
    • 10.3.3.3 Measure
      
    • 10.3.3.4 CreateMovie
      

• 11.1 Summary of Commands
  
• 11.2 Common Options
  
• 11.3 Commands
  
  • 11.3.1 Input
    
  • 11.3.2 SelectSlice
    
  • 11.3.3 Measure
    
  • 11.3.4 Reflect
    
  • 11.3.5 Cut
    
    • 11.3.5.1 Cut-Plane-Interactive
      
    • 11.3.5.2 Cut-Curved
      
  • 11.3.6 Separate
    
  • 11.3.7 Move
    
  • 11.3.8 CreateMovie
    
    • 11.3.8.1 CreateMovie-Tumble
      
    • 11.3.8.2 CreateMovie-PreviousSeq
      

• 12.1 Scene
  
  • 12.1.1 Summary of Coomands
    
  • 12.1.2 Common Options
    
  • 12.1.3 Commands
    
    • 12.1.3.1 Scene-Input
      
    • 12.1.3.2 Scene-DensityProfile
      
    • 12.1.3.3 ROIStatistics
      
• 12.2 Structure
  
  • 12.2.1 Summary of Commands
    
  • 12.2.2 Commands
    
    • 12.2.2.1 Structure-Input
      
    • 12.2.2.2 Structure-Register
      
    • 12.2.2.3 Structure-Kinematics
      

• 13.1 ColorLayout
  
• 13.2 ShowScrn
  

• 14.1 Surface Rendering
  
• 14.2 Volume Rendering
  
• 14.3 Manipulation
  
• 14.4 Analysis
  

• A.1 Converting External Image Data to 3DVIEWNIX Format
  
• A.2 Writing Processing Programs