Documentation/4.0/Modules/ModelToLabelMap - Revision history

UpdateBot: Prepend documentation/versioncheck template. See http://na-mic.org/Mantis/view.php?id=2887

2013-06-14T07:32:52Z

Prepend documentation/versioncheck template. See http://na-mic.org/Mantis/view.php?id=2887

JChris.FillionR at 11:19, 2 February 2012

2012-02-02T11:19:29Z

JChris.FillionR: moved Documentation/4.0/Modules/PolyDataToLabelmap to Documentation/4.0/Modules/ModelToLabelMap

2012-02-02T06:29:48Z

moved Documentation/4.0/Modules/PolyDataToLabelmap to Documentation/4.0/Modules/ModelToLabelMap

Nicole at 01:55, 26 November 2011

2011-11-26T01:55:18Z

Nicole at 01:40, 26 November 2011

2011-11-26T01:40:33Z

Marianna at 20:45, 11 November 2011

2011-11-11T20:45:12Z

Marianna at 20:44, 11 November 2011

2011-11-11T20:44:51Z

Marianna: Created page with ' {{documentation/{{documentation/version}}/module-header}} {{doc…'

2011-11-03T18:56:41Z

Created page with ' {{documentation/{{documentation/version}}/module-header}}   {{doc…'

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{{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}
{{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}
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Information on NA-MIC can be obtained from the [http://www.na-mic.org/ NA-MIC website]. 
Author: Nicole Aucoin, SPL 
Contributor1:Xiaodong Tao, GE 
Contact: Nicole Aucoin, <email>nicole@bwh.harvard.edu</email> 
{{documentation/{{documentation/version}}/module-introduction-row}}
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|Image:Logo-splnew.jpg|Surgical Planning Laboratory
}}
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{{documentation/{{documentation/version}}/module-section|Module Description}}
{{documentation/{{documentation/version}}/module-description|xmlurl={{documentation/{{documentation/version}}/module-cli-xmlurl|{{documentation/modulename}}|17347}} }}


{{documentation/{{documentation/version}}/module-section|Use Cases}}

<gallery>
Image:PolyDataToLabelMap-UI-3-6.png|GUI panel
Image:PolyDataToLabelMap-ViewingPanel-3-6.png|Surface model overlaid on ref image
Image:PolyDataToLabelMap-ViewingPanelResult-3-6.png|Label map generated from surface
</gallery>

* This module may be thought of as the inverse of Marching Cubes.

* A command line example:
<pre>
./PolyDataToLabelmap --distance 1.0
InputReferenceVolume.nrrd
InputSurfaceModel.vtp
OutputLabelMap.nrrd
</pre>

<pre>
./PolyDataToLabelmap --help

USAGE:

./PolyDataToLabelmap [--returnparameterfile <std::string>]
[--processinformationaddress <std::string>]
[--xml] [--echo] [--distance <float>] [--]
[--version] [-h] <std::string> <std::string>
<std::string>

Where:

--returnparameterfile <std::string>
Filename in which to write simple return parameters (int, float,
int-vector, etc.) as opposed to bulk return parameters (image,
geometry, transform, measurement, table).

--processinformationaddress <std::string>
Address of a structure to store process information (progress, abort,
etc.). (default: 0)

--xml
Produce xml description of command line arguments (default: 0)

--echo
Echo the command line arguments (default: 0)

--distance <float>
Sample distance (default: 1)

--, --ignore_rest
Ignores the rest of the labeled arguments following this flag.

--version
Displays version information and exits.

-h, --help
Displays usage information and exits.

<std::string>
(required) Input volume

<std::string>
(required) Model

<std::string>
(required) The label volume

Description: Intersects an input model with an reference volume and
produces an output label map.

Author(s): Nicole Aucoin BWH, Xiaodong Tao, GE

Acknowledgements: This work is part of the National Alliance for Medical
Image Computing (NAMIC), funded by the National Institutes of Health
through the NIH Roadmap for Medical Research, Grant U54 EB005149.
</pre>

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


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{|
|[[Image:PolyDatToLabelMap-IOPanels-3-6.png|thumb|right|280px|Input/Output panels. This module takes three input: '''Input Volume''' is the reference volume. '''Model''' is the surface model from whose interior is to be labeled as foreground, and '''Output Volume''' is the output label map. Output Volume has the same image parameters (size, resolution, orientation, etc) as Input Volume.]]
|[[Image:PolyDataToLabelMap-ParametersPanels-3-6.png|thumb|right|280px|Parameters panels. Since surface can be very sparsely triangulated, this module first resamples the input surface model in an appropriate resolution. The parameter '''Sample Distance''' controls how fine the surface is sampled. The ballpark value for this parameter is the smallest size of voxels (in mm) in Input Volume.]]
|}

{{documentation/{{documentation/version}}/module-section|Similar Modules}}


{{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


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 Information on NA-MIC can be obtained from the [http://www.na-mic.org/ NA-MIC website].<br>
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 <gallery>
 Image:Slicer4-PolyDataToLabelMap-GUI.jpeg|GUI panel
-Image:PolyDataToLabelMap-ViewingPanel-3-6.png|Surface model overlaid on ref image
+Image:Slicer4-PolyDataToLabelMap-Output.jpeg|Surface model overlaid on reference image with generated label map shown in purple on 2d slices
 </gallery>
 * This module may be thought of as the inverse of Marching Cubes.
+* It is useful if you only have a surface model and wish to do volumetric processing on an image
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