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  1. Main Page‏‎ (4 revisions)
  2. Using Shell scripting to lessen typing‏‎ (2 revisions)
  3. Modifying Contours‏‎ (2 revisions)
  4. MIPAV configuration files‏‎ (2 revisions)
  5. DTI: Create List File‏‎ (2 revisions)
  6. Optimized automatic registration 3D‏‎ (2 revisions)
  7. VOIs‏‎ (2 revisions)
  8. PlugInAlgorithmCT MD.java‏‎ (2 revisions)
  9. The SRB tab of the MIPAV options dialog box‏‎ (2 revisions)
  10. Testing the connection‏‎ (2 revisions)
  11. Setting up scripting‏‎ (2 revisions)
  12. Task 6, Calculating statistics on VOIs‏‎ (2 revisions)
  13. MIPAV system requirements‏‎ (2 revisions)
  14. Scope of this guide‏‎ (2 revisions)
  15. Subtract VOI Background‏‎ (2 revisions)
  16. Filters (Spatial): Mode‏‎ (2 revisions)
  17. Opening and loading image files‏‎ (2 revisions)
  18. Posing queries and retrieving images‏‎ (2 revisions)
  19. Transform: Conformal Mapping Algorithms‏‎ (2 revisions)
  20. Slice tools‏‎ (2 revisions)
  21. Microscopy: Blind Deconvolution‏‎ (2 revisions)
  22. Conventions used in this guide‏‎ (2 revisions)
  23. Segmenting Images Using Contours and Masks: Generating Masks‏‎ (2 revisions)
  24. Subversion topics‏‎ (2 revisions)
  25. Manual 2D Series‏‎ (2 revisions)
  26. Inverting the image‏‎ (2 revisions)
  27. Plug-in CT MD.java‏‎ (2 revisions)
  28. Developing and using scripts‏‎ (2 revisions)
  29. FAQ: Why do I get an exception when running MIPAV via X11 forwarding on Linux?‏‎ (2 revisions)
  30. Cumulative Histogram‏‎ (2 revisions)
  31. Editing and deleting scripts‏‎ (2 revisions)
  32. Allocating Memory in MIPAV‏‎ (2 revisions)
  33. Mask‏‎ (2 revisions)
  34. Matching images‏‎ (2 revisions)
  35. Writing MIPAV plugins without MIPAV source code‏‎ (2 revisions)
  36. DTI Pipeline‏‎ (2 revisions)
  37. Analyzing Images‏‎ (2 revisions)
  38. Generating graphs‏‎ (2 revisions)
  39. Fuzzy C-Means: Multispectral and Single Channel Algorithms‏‎ (2 revisions)
  40. MIPAV change list 3.x.x‏‎ (2 revisions)
  41. How this guide is organized‏‎ (2 revisions)
  42. Converting image datasets to different data types‏‎ (2 revisions)
  43. Documentation of MIPAV contributions by Geometric Tools‏‎ (2 revisions)
  44. Microscopy: FRAP (Fluorescence Recovery After Photobleaching)‏‎ (2 revisions)
  45. Quitting MIPAV‏‎ (2 revisions)
  46. PlugIn Algorithm Median (con't, part 3)‏‎ (2 revisions)
  47. Mapping Brains in Talairach Space‏‎ (2 revisions)
  48. FAQ: Understanding Changes in MIPAV‏‎ (2 revisions)
  49. DTI Pipeline Tutorials‏‎ (2 revisions)
  50. Understanding MIPAV capabilities‏‎ (2 revisions)
  51. Filters (Spatial): Gradient Magnitude‏‎ (2 revisions)
  52. Image Math‏‎ (2 revisions)
  53. Cropping images‏‎ (2 revisions)
  54. Filters (Spatial): Median‏‎ (2 revisions)
  55. Correcting image spacing‏‎ (2 revisions)
  56. Edge Detection: Zero X Non-Maximum Suppression‏‎ (2 revisions)
  57. Preface‏‎ (2 revisions)
  58. Prostate segmentation and surface reconstruction‏‎ (2 revisions)
  59. FAQ: Understanding Image Basics‏‎ (2 revisions)
  60. PlugInDialogCT MD.java‏‎ (2 revisions)
  61. Microscopy: Fluorescent Resonance Energy Transfer (FRET) Bleed Through and Efficiency‏‎ (2 revisions)
  62. Mosaic Registration‏‎ (2 revisions)
  63. Examples‏‎ (2 revisions)
  64. Sample images‏‎ (2 revisions)
  65. PlugIn Algorithm Median (con't, part 2)‏‎ (2 revisions)
  66. Viewing the Talairach grid on Talairach images‏‎ (2 revisions)
  67. MIPAV feature list‏‎ (2 revisions)
  68. Degrees of freedom‏‎ (2 revisions)
  69. Transform to power of 2‏‎ (2 revisions)
  70. How to specify the script name of a plugin‏‎ (2 revisions)
  71. Installing‏‎ (2 revisions)
  72. Adding noise to images‏‎ (2 revisions)
  73. Maximum Intensity Projection‏‎ (2 revisions)
  74. Calculating VOI statistics‏‎ (2 revisions)
  75. Displaying and editing DICOM tag information‏‎ (2 revisions)
  76. Standard tasks provided through commands on the Utilities menu‏‎ (2 revisions)
  77. Extract Surface (Marching Cubes)‏‎ (2 revisions)
  78. Understanding Image Basics‏‎ (2 revisions)
  79. PlugIn Algorithm Median (con't)‏‎ (2 revisions)
  80. Hough Transform‏‎ (2 revisions)
  81. Histogram Cumulative‏‎ (2 revisions)
  82. MIPAV change list 5.x.x‏‎ (2 revisions)
  83. Visualizing Images: Displaying images using the cine (movie) view‏‎ (2 revisions)
  84. PlugIn Algorithm Median‏‎ (2 revisions)
  85. MuscleSegmentation plugin‏‎ (2 revisions)
  86. Crontab notes‏‎ (2 revisions)
  87. Reslice-Isotropic Voxels‏‎ (2 revisions)
  88. Working with DICOM Images‏‎ (2 revisions)
  89. Filters (Spatial): Nonmaximum Suppression‏‎ (2 revisions)
  90. Data Upload module‏‎ (2 revisions)
  91. Delineating volumes of interest (VOIs)‏‎ (2 revisions)
  92. Running scripts‏‎ (2 revisions)
  93. Introduction‏‎ (2 revisions)
  94. Creating a mask using the Paint Grow Segmentation method‏‎ (2 revisions)
  95. Microscopy: Fluorescence Resonance Energy Transfer (FRET)-Acceptor‏‎ (2 revisions)
  96. Changing Image Contrast‏‎ (2 revisions)
  97. Calculating statistics on VOI groups‏‎ (2 revisions)
  98. Skills you need to perform tasks in MIPAV‏‎ (2 revisions)
  99. Visualizing Images: Displaying images using the lightbox view‏‎ (2 revisions)
  100. Visualizing Images: Displaying images using the surface renderer view‏‎ (2 revisions)
  101. Creating a self-contained plug-in frame‏‎ (2 revisions)
  102. Viewing MIPAV news and updates‏‎ (2 revisions)
  103. PlugIn Algorithm Median (con't, part 4)‏‎ (2 revisions)
  104. Segmenting Images Using Contours and Masks: Converting masks to VOI contours and paints‏‎ (2 revisions)
  105. Visualizing Images: Displaying images using the default view‏‎ (2 revisions)
  106. Eclipse installation and configuration documentation‏‎ (2 revisions)
  107. References‏‎ (2 revisions)
  108. Planning scripts‏‎ (2 revisions)
  109. Rotating images‏‎ (2 revisions)
  110. Adding image margins‏‎ (2 revisions)
  111. Face Anonymizer (BET)‏‎ (2 revisions)
  112. Displaying images‏‎ (2 revisions)
  113. Using the mipav command‏‎ (2 revisions)
  114. MIPAV change list 2.x‏‎ (2 revisions)
  115. Automatic de-Skulling‏‎ (2 revisions)
  116. Using MIPAV for astronomical image processing‏‎ (2 revisions)
  117. Volume 1, Basics‏‎ (2 revisions)
  118. Map IDs‏‎ (2 revisions)
  119. Making a MIPAV Algorithm Scriptable‏‎ (2 revisions)
  120. Building and compiling plug-in programs‏‎ (2 revisions)
  121. Saving a history of actions on images‏‎ (2 revisions)
  122. Plug-in CT MD, a typical plug-in program‏‎ (2 revisions)
  123. Modifying image resolutions‏‎ (2 revisions)
  124. FAQ: How can I fix a "Cannot load Java Virtual Machine" error (memory limit set too high)?‏‎ (2 revisions)
  125. MIPAV mailing list‏‎ (2 revisions)
  126. How to specify the location of a plugin in the MIPAV menu‏‎ (2 revisions)
  127. Replacing pixel/voxel value in images‏‎ (2 revisions)
  128. Data Download module‏‎ (2 revisions)
  129. Filters (Spatial) Anisotropic Diffusion‏‎ (2 revisions)
  130. 2D Histogram‏‎ (2 revisions)
  131. Using the API documentation‏‎ (2 revisions)
  132. Filters (Spatial): Adaptive Path Smooth‏‎ (2 revisions)
  133. Wiki help testing‏‎ (2 revisions)
  134. Changing the legends for functions‏‎ (2 revisions)
  135. Image submission plug-in‏‎ (2 revisions)
  136. Volume 2, Algorithms‏‎ (2 revisions)
  137. Visualizing Images: Displaying images using the default view:Changing image brightness and contrast using LUTs‏‎ (2 revisions)
  138. Filters (Spatial): Kernel Regression‏‎ (2 revisions)
  139. Registration: Manual 2D Series‏‎ (2 revisions)
  140. Developing new tools using the API‏‎ (2 revisions)
  141. Using Scripts (Macros) in MIPAV‏‎ (2 revisions)
  142. Segmenting Images Using Contours and Masks:Converting VOI contours to masks‏‎ (2 revisions)
  143. Segmenting Images Using Contours and Masks‏‎ (2 revisions)
  144. Technical Support‏‎ (2 revisions)
  145. FAQ: Customizing MIPAV‏‎ (2 revisions)
  146. MIPAV class‏‎ (2 revisions)
  147. BSpline registration: Detecting folding‏‎ (2 revisions)
  148. Data Repository tools‏‎ (2 revisions)
  149. Histogram Equalization: Regional Adaptive‏‎ (2 revisions)
  150. Standard Deviation Threshold‏‎ (2 revisions)
  151. Customizing the appearance of graphs - Modify graph dialog box‏‎ (2 revisions)
  152. Shading Correction: Inhomogeneity N3 Correction‏‎ (2 revisions)
  153. Customizing MIPAV‏‎ (2 revisions)
  154. Where to find more information‏‎ (2 revisions)
  155. Microscopy Colocalization Orthogonal Regression‏‎ (2 revisions)
  156. DTI Estimate tensor‏‎ (2 revisions)
  157. MIPAV change list 4.x.x‏‎ (2 revisions)
  158. 3-D Surface Views‏‎ (2 revisions)
  159. Displaying MIPAV Toolbars‏‎ (2 revisions)
  160. Visualizing Images: Displaying images using the link to another image view‏‎ (2 revisions)
  161. Filters (Spatial): Regularized Isotropic (Nonlinear) Diffusion‏‎ (2 revisions)
  162. Installing a plug-in‏‎ (2 revisions)
  163. Registration: Landmark-TPSpline‏‎ (2 revisions)
  164. MIPAV toolbars‏‎ (2 revisions)
  165. Filters (Spatial): Gaussian Blur‏‎ (2 revisions)
  166. Connecting to SRB BIRN‏‎ (2 revisions)
  167. Browsing DICOM images‏‎ (2 revisions)
  168. Histogram Equalization: Neighborhood Adaptive‏‎ (2 revisions)
  169. Interpolation methods used in MIPAV‏‎ (2 revisions)
  170. Using MIPAV Algorithms‏‎ (2 revisions)
  171. Who should use this guide‏‎ (2 revisions)
  172. MIPAV change list pre-1.0‏‎ (2 revisions)
  173. Filters (Spatial): Haralick Texture‏‎ (2 revisions)
  174. Image formats descriptions‏‎ (2 revisions)
  175. Copying images using the Clone command‏‎ (2 revisions)
  176. To show the splash screen‏‎ (2 revisions)
  177. Contributing code to MIPAV‏‎ (2 revisions)
  178. Threshold‏‎ (2 revisions)
  179. FAQ: Trimming VOIs‏‎ (2 revisions)
  180. Supported algorithms‏‎ (2 revisions)
  181. Reviewing VOI statistics‏‎ (2 revisions)
  182. Saving and printing images‏‎ (2 revisions)
  183. Creating new images‏‎ (2 revisions)
  184. Background‏‎ (2 revisions)
  185. Data Validation module‏‎ (2 revisions)
  186. NEIRetinalRegistration‏‎ (2 revisions)
  187. Extract Brain: Extract Brain Surface (BET)‏‎ (2 revisions)
  188. Fast Fourier Transformation (FFT)‏‎ (2 revisions)
  189. Technical Information‏‎ (2 revisions)
  190. Matrix, Plot, LUT, VOI and Surface files‏‎ (2 revisions)
  191. Combining scripts and other programs‏‎ (2 revisions)
  192. MIPAV change list 1.xx‏‎ (2 revisions)
  193. Supported utilities‏‎ (2 revisions)
  194. Developing Plugin Programs‏‎ (2 revisions)
  195. Filters (Wavelet): De-noising BLS GSM‏‎ (2 revisions)
  196. Understanding plug-in programs‏‎ (2 revisions)
  197. Pad‏‎ (2 revisions)
  198. Filters (Spatial): Nonlinear Noise Reduction‏‎ (2 revisions)
  199. FAQ: How do I setup and use Active stereo display in MIPAV?‏‎ (2 revisions)
  200. Task 2, Applying Talairach VOIs‏‎ (2 revisions)
  201. Registration: Landmark-Least Squares‏‎ (2 revisions)
  202. Task 3, Segmenting the original image‏‎ (2 revisions)
  203. Introducing MIPAV‏‎ (2 revisions)
  204. Transform‏‎ (2 revisions)
  205. Swap slices and swap volumes‏‎ (2 revisions)
  206. Visualizing Images: Displaying images using the surface plotter view‏‎ (2 revisions)
  207. MIPAV Script Running‏‎ (2 revisions)
  208. Sending and retrieving DICOM images‏‎ (2 revisions)
  209. Recording utilities usage with the history feature‏‎ (2 revisions)
  210. Developing plug-in programs‏‎ (2 revisions)
  211. Muscle Segmentation‏‎ (2 revisions)
  212. Calculating the volume of masks‏‎ (2 revisions)
  213. Muscle Segmentation problems at UCSD‏‎ (2 revisions)
  214. Flipping images‏‎ (2 revisions)
  215. Examples of BSpline registration‏‎ (2 revisions)
  216. Task 1, Performing a semimanual transformation on datasets to the Talairach coordinate system‏‎ (2 revisions)
  217. Watershed‏‎ (2 revisions)
  218. Filters (Spatial): Mean‏‎ (2 revisions)
  219. Edge Detection: Zero X Laplacian‏‎ (2 revisions)
  220. Extract Brain: Extract Brain Surface (BSE)‏‎ (2 revisions)
  221. Supported file formats‏‎ (2 revisions)
  222. 4 D tools‏‎ (2 revisions)
  223. MIPAV Help‏‎ (2 revisions)
  224. DTI Color Display‏‎ (2 revisions)
  225. MIPAV Script Recording‏‎ (2 revisions)
  226. DTI pipeline interface‏‎ (2 revisions)
  227. Why can't I see the plugins I install in the menu?‏‎ (2 revisions)
  228. Glossary for MIPAV Help‏‎ (2 revisions)
  229. Load and save profile‏‎ (2 revisions)
  230. Task 5, Copying Talairach VOIs to segmented images‏‎ (2 revisions)
  231. Getting Started with Eclipse‏‎ (2 revisions)
  232. Subsampling images‏‎ (2 revisions)
  233. FAQ: How can I view the debugging output of MIPAV?‏‎ (2 revisions)
  234. Autocovariance Coefficients‏‎ (2 revisions)
  235. Filters (Spatial) Laplacian‏‎ (2 revisions)
  236. Making a MIPAV Algorithm JISTable‏‎ (2 revisions)
  237. Filters (Spatial): Adaptive Noise Reduction‏‎ (2 revisions)
  238. FAQ: Understanding Memory‏‎ (2 revisions)
  239. Registration: Time Series Optimized Automatic Registration‏‎ (2 revisions)
  240. Segmenting Images Using Contours and Masks: Advanced paint and Power Paint tools‏‎ (2 revisions)
  241. Inserting slices into image datasets‏‎ (2 revisions)
  242. B-Spline Automatic Registration‏‎ (2 revisions)
  243. Figure 1‏‎ (2 revisions)
  244. B-Spline Automatic Registration Dialog box‏‎ (2 revisions)
  245. Filters (Spatial): Local Normalization‏‎ (2 revisions)
  246. Morphology‏‎ (2 revisions)
  247. Changing Image Datasets Using MIPAV Utilities‏‎ (2 revisions)
  248. Image overlays and composites‏‎ (2 revisions)
  249. Filters (Spatial): Slice Averaging‏‎ (2 revisions)
  250. Autocorrelation Coefficients‏‎ (2 revisions)

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