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{{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}
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This work is part of the National Alliance for Medical Image Computing (NA-MIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149. Information on NA-MIC can be obtained from the [http://www.na-mic.org/ NA-MIC website]. 
Author: Isaiah Norton, Goldby Lab 
Author: Demian Wassermann, SPL 
Contributor1: Steve Pieper, Isomics Inc. 
Contributor2: Alex YarmarKovich, Isomics Inc. 
Contact: Demian Wassermann, <email>demian@bwh.harvard.edu</email> 
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|Image:Logo-splnew.jpg|Surgical Planning Laboratory
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{{documentation/{{documentation/version}}/module-section|Module Description}}
Allows the user to manipulate several different characteristics of the traced white matter tracts. Examples are: change of color; display of the fractional anisotropy along the tract; display of the tracts as tubes or lines; interactive selection of the tracts; and cropping.


{{documentation/{{documentation/version}}/module-section|Use Cases}}
Most frequently used for these scenarios:

* Use Case 1: Change the scalar quantity displayed along the tract, like Fractional Anisotropy or Color By Orientation
* Use Case 2: Display the tracts as lines or tubes
* Use Case 3: Interactive selection or cropping of a certain bundle.


{{documentation/{{documentation/version}}/module-section|Tutorials}}
Links to tutorials that use this module


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[[image:2011-11-12-CroppingWholeBrainTractography.png|400px]]

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*
** Line: Display the tracts as lines
** Tube: Display the tracts as tubes
*** Slice Intersection: Show the tracts in the 2D view
** Glyph: Display glyphs representing the diffusion tensors along the tracts
** Percentage of Fibers Shown: Select how many of the total tracts in the bundle are shown. Useful for performance.
* Fiber Bundle Selection: Perform interactive selection and cropping of the tracts
** ROI for Fiber Selection: Select a ROI to use as an interactor with the tracts
** Disable/Positive/Negative ROI: Set the selection mode to '''Select everything'''; '''Select the tracts traversing the ROI'''; '''Select the tracts not traversing the ROI'''
** Create Bundle From ROI: Create a new fiber bundle which contains only the selected ones
** Update Bundle From ROI: Update the current fiber bundle leaving only the selected ones
* Advance Display: For the lines, tubes and glyphs
** Visibility: Toggle the visibility of the bundle
** Opacity: Change the transparency level of the bundle
** Color By: Change the way the bundle is colored; either by a tensor-derived property or by a group id
** Solid Color: Color the bundle of a single solid color



{{documentation/{{documentation/version}}/module-section|References}}
Publications related to this module go here. Links to pdfs would be useful.
For extensions: link to the source code repository and additional documentation


{{documentation/{{documentation/version}}/module-section|Information for Developers}}
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Documentation/4.2/Modules/TractographyDisplay - Revision history

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