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  1. 3-D Surface Views
  2. Adding image margins
  3. Algorithms used to draw VOI
  4. Analyzing Images
  5. Background
  6. Building and compiling plug-in programs
  7. Calculating the volume of masks
  8. Changing Image Datasets Using MIPAV Utilities
  9. Changing the legends for functions
  10. Combining scripts and other programs
  11. Connecting to SRB BIRN
  12. Contributing code to MIPAV
  13. Conventions used in this guide
  14. Copying images using the Clone command
  15. Creating a mask using the Paint Grow Segmentation method
  16. Creating a self-contained plug-in frame
  17. Crontab notes
  18. Customizing the appearance of graphs - Modify graph dialog box
  19. DICOM Conformance
  20. Developing Plugin Programs
  21. Developing and using scripts
  22. Developing plug-in programs
  23. Documentation of MIPAV contributions by Geometric Tools
  24. Eclipse installation and configuration documentation
  25. Editing and deleting scripts
  26. Examples
  27. Examples of MIPAV plug-ins
  28. FAQ: Why do I get an exception when running MIPAV via X11 forwarding on Linux?
  29. Figure 1
  30. Generating graphs
  31. Getting Started with Eclipse
  32. Glossary for MIPAV Help
  33. Histogram
  34. How this guide is organized
  35. How to specify the script name of a plugin
  36. Image Calculator: OR
  37. Image overlays and composites
  38. Installing
  39. Installing a plug-in
  40. Introduction
  41. Inverting the image
  42. MIPAV FAQ
  43. MIPAV Help
  44. MIPAV Script Recording
  45. MIPAV Script Running
  46. MIPAV change list
  47. MIPAV change list 1.xx
  48. MIPAV change list 2.x
  49. MIPAV change list 3.x.x
  50. MIPAV change list 4.x.x
  51. MIPAV change list 5.x.x
  52. MIPAV change list pre-1.0
  53. MIPAV class
  54. MIPAV feature list
  55. Main Page
  56. Making a MIPAV Algorithm JISTable
  57. Making a MIPAV Algorithm Scriptable
  58. Mapping Brains in Talairach Space
  59. Matrix, Plot, LUT, VOI and Surface files
  60. Maximum Intensity Projection
  61. Modifying Contours
  62. MuscleSegmentation plugin
  63. Muscle Segmentation problems at UCSD
  64. Pad
  65. Planning scripts
  66. Plug-in CT MD, a typical plug-in program
  67. Plug-in CT MD.java
  68. PlugInAlgorithmCT MD.java
  69. PlugInDialogCT MD.java
  70. PlugIn Algorithm Median
  71. PlugIn Algorithm Median (con't)
  72. PlugIn Algorithm Median (con't, part 2)
  73. PlugIn Algorithm Median (con't, part 3)
  74. PlugIn Algorithm Median (con't, part 4)
  75. Preface
  76. Recording scripts
  77. Recording utilities usage with the history feature
  78. References
  79. Rotating images
  80. Saving a history of actions on images
  81. Scope of this guide
  82. Segmenting Images Using Contours and Masks:Converting VOI contours to masks
  83. Segmenting Images Using Contours and Masks: Converting masks to VOI contours and paints
  84. Segmenting Images Using Contours and Masks: Generating Masks
  85. Segmenting Images Using Contours and Masks: Using contours to segment a VOI
  86. Select Algorithms and Brain Tools for Talairach Transform
  87. Setting up scripting
  88. Skills you need to perform tasks in MIPAV
  89. Standard tasks provided through commands on the Utilities menu
  90. Subversion topics
  91. Supported utilities
  92. TRE Scripts
  93. Task 1, Performing a semimanual transformation on datasets to the Talairach coordinate system
  94. Task 2, Applying Talairach VOIs
  95. Task 3, Segmenting the original image
  96. Task 4, Transforming Talairach image and Talairach VOIs-1 to the original image
  97. Task 5, Copying Talairach VOIs to segmented images
  98. Task 6, Calculating statistics on VOIs
  99. Technical Information
  100. The SRB tab of the MIPAV options dialog box

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