http://hdl.handle.net/1926/521

1. Slicer Training 1 Loading and Viewing Data Sonia Pujol, Ph.D. Randy Gollub, M.D., Ph.D.

4. Welcome to 3D Slicer

5. Goal of the tutorial Guiding you step by step through the process of Loading and Viewing Data within Slicer

7. Goal of the tutorial Final result of the series of exercises

9. Slicer Interface Tk window Viewer Menu

10. Slicer Menu Select the Volumes Module

11. Panels and Tabs The Panel of the Volumes Module appears

12. Slicer Menu Panels Sliders Buttons Control Window

15. Slicer Modules The architecture of Slicer is modular Select Modules in the SubMenu

16. Slicer Modules The list of Slicer Modules categories appears Settings IO Application Filtering Segmentation Registration Measurement Visualization Examples Unfiled Alpha

23. Loading Data Slicer Advantage Putting together Images and Surface

26. Loading DICOM Volumes Click on Add Volume in the Slicer Menu

27. Loading DICOM Volumes Left-click on the Menu Properties and change Basic to DICOM The Panel Props appears by default.

28. Loading DICOM Volumes Click on Select DICOM Volume The DICOM panel appears

29. Loading DICOM Volumes Select the directory dicom in the Tutorial-with-dicom dataset

30. Loading DICOM Volumes The list of DICOM studies appears. Click OK

35. Visualization Support The value of the gray level of the pixel under the cursor appears in the corresponding slice

37. Viewing Volumes The Axial, Sagittal and Coronal Images appear in the Viewer

41. Viewing Volumes Select the 3D View The View Menu contains different options to visualize the data

42. Viewing Volumes 3D View focuses on 3D

43. Viewing Volumes Select 4x512 The View Menu contains different options to visualize the data

44. Viewing Volumes 4x512 view: larger image views to see details

45. Viewing Volumes Select 1x512 The View Menu contains different options to visualize the data

48. Viewing Volumes 4x256 view: smaller equal-sized images Come back to Normal View

53. Volumes without Header 1. Main  Data 2. Add Volume 3. Browse to find the first image of the Volume spgr in the directory tutorial 4. Select first image I.001 of volume to load, and click Open 5. Click on Manual 6. Click on Apply

57. Volumes without Header The spgr volume appears in the Viewer

61. Loading Models The model of the vessels appears in the Viewer.

64. Loading a Scene The viewer displays the tutorial Scene

65. Loading a Scene The elements of the Scene are listed in the Menu Window

68. Manipulating a Model Put the mouse on the 3D Slicer icon

69. Manipulating a Model The Control Window appears

70. Manipulating a Model Position the mouse on the R letter (Right) inside the window

71. Manipulating a Model The View Panel shows the model from the right side of the patient

72. Manipulating a Model Click on the Spin button

73. Manipulating a Model The model starts spinning inside the Viewer Panel.

74. Manipulating a Model Click on the Rock button

75. Manipulating a Model The model starts rocking inside the Viewer Panel.

76. Manipulating a Model Come back to initial orientation of the Viewer Panel by clicking on the A letter (Anterior) inside the window.

80. Model Opacity Skin model Opacity = 0.5

82. Model Visibility Vessels model Visibility 0ff

84. Viewing 3D Models Show None: the models have disappeared

89. 2D Viewer Images in the label map layer appear as outlines around the structures that were segmented.

90. 2D Viewer Left Click on Fg in the Axial View and select the Volume named all in the Axial, Sagittal and Coronal slices.

92. 2D Viewer The volume all is superimposed on the images

95. Clipping Models Click + or - to select which side of each slice to clip on. Set the sides to: Red Slice + Yellow Slice - Green Slice -

96. Clipping Models Clipping Model Result