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[[Documentation-3.6|Return to Slicer 3.6 Documentation]]

__NOTOC__
===Module Name===
'''FiberBundles'''

{|
|[[Image:DTIDisplayLines.png|thumb|280px|DTI fiber tracks displayed as Lines]]
|[[Image:DTIDisplayTubes.png|thumb|280px|DTI fiber tracks displayed as Tubes]]
|[[Image:DTIDisplayGlyphs.png|thumb|280px|DTI fiber tracks displayed as Glyphs]]
|}

== General Information ==
===Module Type & Category===
Type: Interactive

Category: Tractography

===Authors, Collaborators & Contact===
* Alex Yarmarkovich, Isomics, SPL
* Contact: Alex Yarmarkovich, alexy@bwh.harvard.edu

===Module Description===
This module is used for loading, saving, and changing the appearance of DTI fiber tracts.
== Usage ==

=Load=
* Load Tractography allows the user to load a single track file. The file should be a VTK polydata file (.vtk or .vtp) containing polylines with Tensor point data.
*Load Tractography directory will load all the VTK models (*.vtk) that are located in in the selected directory

=Display=
* Fiber Bundle Select: Select the bundle that you want to modify from a list
* Display for Lines/Tubes/Glyphs: select which representation to edit. Note that you can have more than one representation visible at the same time, for example Lines and Glyphs.
* Visibility: Turn a fiber bundle on or off in the 3D window
* Color By Scalar: Select from the list of derived tensor scalar properties such as Fractional Anisotropy, etc.
* Scalar Color Map: Select the color mapping used to map from the scalar values to colors.
* Scalar Color Visibility: Toggle the coloring by the scalar values.
* Clipping: Set clipping on or off for this bundle. Once it is on, go to the Models->Clipping pane to set the options.
* Opacity: Set how transparent this track is.
* Set Color: Set the base color for this bundle.
* Glyph Display Properties: Only applicable to glyphs.
** Glyph Type: Lines, Tubes, or Ellipsoids.
** Scale factor: Controls glyph size.
** Spacing: Controls the number of glyphs along the tract.

=Save=
*Fiber Bundle To Save: Select a bundle from the list.
*Save Tractography: Opens a file browser to let you select the location to which to save the file. The valid extensions and file types that can be used are:
**.vtk poly data
**.vtp xml poly data

===Examples, Use Cases & Tutorials===
* Tutorial about [http://wiki.na-mic.org/Wiki/index.php/Slicer3:Training
loading and viewing data].

===Quick Tour of Features and Use===
* '''Load:''' Load fiber tracts into Slicer3
* '''Display:''' Adjust track display parameters
* '''Save:''' Saves models onto disk

== Development ==

===Dependencies===

Other modules or packages that are required for this module's use.

===Known bugs===

Follow this [http://na-mic.org/Mantis/main_page.php link] to the Slicer3 bug tracker.

===Usability issues===

Follow this [http://na-mic.org/Mantis/main_page.php link] to the Slicer3 bug tracker. Please select the '''usability issue category''' when browsing or contributing.

Follow this [http://viewvc.slicer.org/viewcvs.cgi/trunk/Modules/Tractography/Display/ link] to the source code in ViewVC.

[http://www.na-mic.org/Slicer/Documentation/Slicer3-doc/html/classes.html Documentation] generated by doxygen.

== More Information ==

===Acknowledgment===

===References===

Modules:DTIDisplay-Documentation-3.6 - Revision history

Alexy: Created page with 'Return to Slicer 3.6 Documentation __NOTOC__ ===Module Name=== '''FiberBundles''' {| |[[Image:DTIDisplayLines.png|thumb|280px|DTI fiber tracks displayed a…'

Alexy: Created page with 'Return to Slicer 3.6 Documentation NOTOC ===Module Name=== '''FiberBundles''' {| |[[Image:DTIDisplayLines.png|thumb|280px|DTI fiber tracks displayed a…'