Difference between revisions of "Modules:Volumes-Documentation"

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* [[Modules:Volumes:Diffusion_Editor-Documentation| Diffusion Editor]]
 
* [[Modules:Volumes:Diffusion_Editor-Documentation| Diffusion Editor]]
 
** For DWI
 
** For DWI
*** you can edit gradients manually or load existing gradients from file (.txt or .nhdr).
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*** editing gradients manually or load existing gradients from file (.txt or .nhdr).
*** you can edit the measurement frame manually or simply rotate/swap/negate columns by selecting them.  
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*** editing the measurement frame manually or simply rotate/swap/negate columns by selecting them.  
*** you can do some testing with the parameters by estimating a tensor and displaying glyphs and tracts.
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*** testing the parameters by estimating a tensor and displaying glyphs and tracts.
 
** For DTI
 
** For DTI
*** you can edit the measurement frame as described above.   
+
*** editing the measurement frame as described above.   
*** you can do some testing by displaying glyphs and tracts.
+
*** testing by displaying glyphs and tracts.
 
* Glyph On Slices Display editor
 
* Glyph On Slices Display editor
 
** Controls the tensor glyphs visibility on individual slices in both 3D and 2D viewers.
 
** Controls the tensor glyphs visibility on individual slices in both 3D and 2D viewers.

Revision as of 15:34, 29 April 2008

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overview
  • The Volumes Module loads, saves and adjusts display parameters of volume data.
  • Load
    • select the volume that you want to load
    • If needed edit the name that will be displayed for this volume inside slicer
    • If your volume is not a nrrd or dicom format, select "centered" for image origin, else select "from file".
    • If this is a label map, click the box
    • Active Volume: determines which volume is manipulated by the Display section. Make sure that you select the Volume that you intend to work on!
  • Display
    • Allows you to adjust the way that a volume is displayed
    • Window/Level can be set manually or automatically.
    • Threshold is a way to make the background black disappear in the 3D view, when slices are turned to visible.
    • For labelmaps you can select here the proper look-up table through the Color Select pull-down.
    • For DWI volumes you can select a component of the volume to visualize.
    • For DWI volumes you can edit the gradient directions and measurement frame using the Diffusion Editor described below.
    • For DTI volumes you can select a scalar drived component of the tensor volume (such as FA) to visualize.
    • For DTI volumes you can control the tensor glyphs visualization on the slice planes using the Glyph On Slices Display editor described below.
  • Diffusion Editor
    • For DWI
      • editing gradients manually or load existing gradients from file (.txt or .nhdr).
      • editing the measurement frame manually or simply rotate/swap/negate columns by selecting them.
      • testing the parameters by estimating a tensor and displaying glyphs and tracts.
    • For DTI
      • editing the measurement frame as described above.
      • testing by displaying glyphs and tracts.
  • Glyph On Slices Display editor
    • Controls the tensor glyphs visibility on individual slices in both 3D and 2D viewers.
    • Selects the scalar to color the glyphs by and the color map to apply.
    • Controls glyphs opacity, glyph type, scale and sampling rate.
  • Info
    • Provides some basic information about the Volume
  • Save
    • Lets you save a volume. Make sure to provide an extension (such as myvolume.nrrd)