Difference between revisions of "Documentation/Nightly/Modules/FiberBundleToLabelMap"

From Slicer Wiki
Jump to: navigation, search
 
(One intermediate revision by one other user not shown)
Line 8: Line 8:
 
{{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}
 
{{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}
 
{{documentation/{{documentation/version}}/module-introduction-row}}
 
{{documentation/{{documentation/version}}/module-introduction-row}}
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].<br>
+
 
Author: Steve Pieper (SPL, Isomics, Inc.) <br>
+
 
<email>pieper@bwh.harvard.edu</email><br>
+
Title: Fiber Bundle to Label Map
 +
 
 +
Author(s)/Contributor(s): Steve Pieper (SPL, Isomics, Inc.), Isaiah Norton (SPL, LMI, BWH, SlicerDMRI)
 +
 
 +
License: 3D Slicer Contribution and Software License Agreement
 +
 
 +
Acknowledgements: The SlicerDMRI developers gratefully acknowledge funding for this project provided by NIH NCI ITCR U01CA199459 (Open Source Diffusion MRI Technology For Brain Cancer Research), NIH P41EB015898 (National Center for Image-Guided Therapy) and NIH P41EB015902 (Neuroimaging Analysis Center), as well as 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.
 +
 
 +
Contact:  slicer-users@bwh.harvard.edu
 +
 
 +
Website: http://slicerdmri.github.io/
 +
 
 
{{documentation/{{documentation/version}}/module-introduction-row}}
 
{{documentation/{{documentation/version}}/module-introduction-row}}
 
{{documentation/{{documentation/version}}/module-introduction-logo-gallery
 
{{documentation/{{documentation/version}}/module-introduction-logo-gallery
|{{collaborator|logo|namic}}|{{collaborator|longname|namic}}
+
|Image:SlicerDMRIScreenshot.jpg|SlicerDMRI
|{{collaborator|logo|nac}}|{{collaborator|longname|nac}}
+
|Image:Logo-splnew.jpg|Surgical Planning Laboratory
 +
|Image:NAC-logo.png|NAC
 +
|Image:CC label.png| Corpus callosum (CC) tracts
 +
|Image:CC tract label.png| Label map from the corpus callosum (CC) tracts.
 
}}
 
}}
 +
 
{{documentation/{{documentation/version}}/module-introduction-end}}
 
{{documentation/{{documentation/version}}/module-introduction-end}}
  
Line 26: Line 41:
 
[[File:FiberBundleToLabelMap-Screen Shot 2013-07-08 at 11.27.12 AM.png|thumb|300px|Example of the label map generated from a set of fibers]]
 
[[File:FiberBundleToLabelMap-Screen Shot 2013-07-08 at 11.27.12 AM.png|thumb|300px|Example of the label map generated from a set of fibers]]
  
This module sets the specified label value in the label map at every vertex in each of the fibers in a bundle.  Note that this assumes that the fibers vertices are closely spaced relative to the voxels (i.e. the Integration Step Length in the [[Documentation/{{documentation/version}}/Modules/TractographyLabelMapSeeding|seeding module]] is smaller than the voxel size or some voxels could be missed.
+
This module sets the specified label value in the label map at every vertex in each of the fibers in a bundle.   
 +
 
 +
This module first upsamples points along the fiber bundle in order to get better voxel coverage.  
  
 
<!-- ---------------------------- -->
 
<!-- ---------------------------- -->
Line 50: Line 67:
 
<!-- ---------------------------- -->
 
<!-- ---------------------------- -->
 
{{documentation/{{documentation/version}}/module-section|References}}
 
{{documentation/{{documentation/version}}/module-section|References}}
N/A
+
*  http://slicerdmri.github.io/
  
 
<!-- ---------------------------- -->
 
<!-- ---------------------------- -->
 
{{documentation/{{documentation/version}}/module-section|Information for Developers}}
 
{{documentation/{{documentation/version}}/module-section|Information for Developers}}
 
This is a python scripted module.
 
This is a python scripted module.
 +
 +
* https://github.com/SlicerDMRI
  
 
<!-- ---------------------------- -->
 
<!-- ---------------------------- -->
 
{{documentation/{{documentation/version}}/module-footer}}
 
{{documentation/{{documentation/version}}/module-footer}}
 
<!-- ---------------------------- -->
 
<!-- ---------------------------- -->

Latest revision as of 20:52, 6 July 2016

Home < Documentation < Nightly < Modules < FiberBundleToLabelMap

For the stable Slicer documentation, visit the 4.10 page.

Introduction and Acknowledgements


Title: Fiber Bundle to Label Map

Author(s)/Contributor(s): Steve Pieper (SPL, Isomics, Inc.), Isaiah Norton (SPL, LMI, BWH, SlicerDMRI)

License: 3D Slicer Contribution and Software License Agreement

Acknowledgements: The SlicerDMRI developers gratefully acknowledge funding for this project provided by NIH NCI ITCR U01CA199459 (Open Source Diffusion MRI Technology For Brain Cancer Research), NIH P41EB015898 (National Center for Image-Guided Therapy) and NIH P41EB015902 (Neuroimaging Analysis Center), as well as 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.

Contact: slicer-users@bwh.harvard.edu

Website: http://slicerdmri.github.io/

SlicerDMRI  
Surgical Planning Laboratory  
NAC  
Corpus callosum (CC) tracts  
Label map from the corpus callosum (CC) tracts.  


Module Description

Example of the label map generated from a set of fibers

This module sets the specified label value in the label map at every vertex in each of the fibers in a bundle.

This module first upsamples points along the fiber bundle in order to get better voxel coverage.

Tutorials

Panels and their use

  • Fiber Bundle
    • Pick a fiber bundle to rasterize
  • Target Label Map
    • The fibers will be painted into this label map. Note that this will add to and overwrite existing data, but does not clear the label map to zero first.
  • Label Value
    • Numerical value to be written into the label map.


Similar Modules

Model To Label Map

References

Information for Developers

This is a python scripted module.