Grundlett: Text replacement - "(.)@(.)<\/email>" to "$1{{@}}$2"

2019-11-27T05:22:18Z

Text replacement - "<email>(.*)@(.*)<\/email>" to "$1{{@}}$2"

UpdateBot: Nightly -> 4.10

2018-10-19T00:44:09Z

Nightly -> 4.10

New page

<noinclude>{{documentation/versioncheck}}</noinclude>

{{documentation/{{documentation/version}}/module-header}}


{{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}
'''''Author:''''' Jean-Baptise Vimort, Kitware Inc.<br>
'''''Contributors:''''' Beatriz Paniagua (Kitware Inc), Lucia Cevidanes (University of Michigan - School of Dentistry), Erika Benavides (University of Michigan - School of Dentistry), Antônio Carlos de Oliveira Ruellas (University of Michigan - School of Dentistry)<br>
'''''Contact:''''' Jean-Baptiste Vimort, <email>jb.vimort@kitware.com</email><br>
'''''Acknowledgments:''''' This work was supported by the National Institute of Health (NIH) National Institute for Dental and Craniofacial Research (NIDCR) grant R21DE025306 (Textural Biomarkers of Arthritis for the Subchondral Bone in the Temporomandibular Joint), NIDCR grant R01DE024450 (Quantification of 3D bony Changes in
Temporomandibular Joint Osteoarthritis) and National Institute of Biomedical Imaging and Bioengineering NIBIB) grant R01EB021391 (Shape Analysis Toolbox for Medical Image Computing Projects).<br>
'''''License:''''' [http://www.apache.org/licenses/LICENSE-2.0.html Apache License, Version 2.0]
<gallery>
Image:Kitware-logo.png|Kitware Inc.
Image:UofM-logo.png|University of Michigan
</gallery>

{{documentation/{{documentation/version}}/extension-section|Extension Description}}

{|
|[[Image:Logo-BoneTextureExtension.png|250px]]
|
This extensions contain several modules that can be used to compute feature maps of N-Dimensional images using two well-known texture analysis methods: the study of Grey Level Co-occurrence Matrix (GLCM) and the study of Grey Level Run Length Matrix (GLRLM). The main algorithms used in this extension are part of a remote module of insight toolkit (ITK) called [http://www.insight-journal.org/browse/publication/985 itkTextureFeatures]

Key Features:

* Estimated texture features:
** 8 co-occurrence textural features: energy, entropy, correlation, inverse difference moment, inertia, cluster shade, cluster prominence and Haralick correlation
** 10 run length textural features: short run emphasis, long run emphasis, grey level non uniformity, run length non uniformity, low grey level run emphasis, high grey level run emphasis, short run low grey level emphasis, short run high grey level emphasis, long run low grey level emphasis and long run high grey level emphasis.
* Input configurable parameters: locality of the texture, offset directions for co-occurrence and run length computation, the number of bins for the intensity histograms, and the intensity range or the range of run lengths.
|}


{{documentation/{{documentation/version}}/module-section|Usage}}

==Main modules interface==
{|
|[[Image:BoneTexture-Interface.png|thumb|400px|BoneTexture User Interface]]
|[[Image:BoneTextureSerializer-Interface.png|thumb|400px|BoneTextureSerializer User Interface]]
|}
==Input example==
{|
|[[Image:Scan.eps|thumb|400px|Input scan]]
|[[Image:CondileMask.eps|thumb|345px|Input mask]]
|}

==Texture features==
{|
|[[Image:TextureFeaturesTab.png|thumb|600px|Texture feature result table]]
|}

==Texture feature maps==

===Co-occurrence texture feature maps===
{|
|[[Image:Energy.eps|thumb|200px|Energy]]
|[[Image:Entropy.eps|thumb|200px|Entropy]]
|[[Image:Correlation.eps|thumb|200px|Correlation]]
|[[Image:InverseDifferenceMoment.eps|thumb|200px|Inverse difference moment]]
|}
{|
|[[Image:Inertia.eps|thumb|200px|Inertia]]
|[[Image:ClusterShade.eps|thumb|200px|Cluster shade]]
|[[Image:ClusterProminence.eps|thumb|200px|Cluster prominence]]
|[[Image:HaralickCorrelation.eps|thumb|200px|Haralick correlation]]
|}

===Run Length texture feature maps===
{|
|[[Image:ShortRunEmphasis.eps|thumb|200px|Short run emphasis]]
|[[Image:LongRunEmphasis.eps|thumb|200px|Long run emphasis]]
|[[Image:GreyLevelnonUniformity.eps|thumb|200px|Grey level non uniformity]]
|[[Image:RunLengthnonUniformity.eps|thumb|200px|Run length non uniformity]]
|[[Image:LowGreyLevelRunEmphasis.eps|thumb|200px|Low grey level run emphasis]]
|}
{|
|[[Image:HighGreyLevelRunEmphasis.eps|thumb|200px|High grey level run emphasis]]
|[[Image:ShortRunLowGreyLevelEmphasis.eps|thumb|200px|Short run low grey level emphasis]]
|[[Image:ShortRunHighGreyLevelEmphasis.eps|thumb|200px|Short run high grey level emphasis]]
|[[Image:LongRunLowGreyLevelEmphasis.eps|thumb|200px|Long run low grey level emphasis]]
|[[Image:LongRunHighGreyLevelEmphasis.eps|thumb|200px|Long run high grey level emphasis]]
|}


{{documentation/{{documentation/version}}/extension-section|Modules}}

*[[Documentation/{{documentation/version}}/Modules/BoneTexture|BoneTexture]]
*[[Documentation/{{documentation/version}}/Modules/BoneTextureSerializer|BoneTextureSerializer]]
*[[Documentation/{{documentation/version}}/Modules/ComputeGLCMFeatureMaps|ComputeGLCMFeatureMaps]]
*[[Documentation/{{documentation/version}}/Modules/ComputeGLCMFeatures|ComputeGLCMFeatures]]
*[[Documentation/{{documentation/version}}/Modules/ComputeGLRLMFeatureMaps|ComputeGLRLMFeatureMaps]]
*[[Documentation/{{documentation/version}}/Modules/ComputeGLRLMFeatures|ComputeGLRLMFeatures]]
*[[Documentation/{{documentation/version}}/Modules/SeparateVectorImage|SeparateVectorImage]]


{{documentation/{{documentation/version}}/module-section|Additional Information}}

* [http://www.insight-journal.org/browse/publication/985 InsightJournal article]
* [https://github.com/InsightSoftwareC BoneTextureExtension Tutorial]


{{documentation/{{documentation/version}}/extension-section|Similar Extensions}}
N/A


{{documentation/{{documentation/version}}/extension-section|Information for Developers}}

The source code is available on [https://github.com/Kitware/BoneTextureExtension github]


{{documentation/{{documentation/version}}/extension-footer}}

@@ Line 7: / Line 7: @@
 '''''Author:''''' Jean-Baptise Vimort, Kitware Inc.<br>
 '''''Contributors:''''' Beatriz Paniagua (Kitware Inc), Lucia Cevidanes (University of Michigan - School of Dentistry), Erika Benavides (University of Michigan - School of Dentistry), Antônio Carlos de Oliveira Ruellas (University of Michigan - School of Dentistry)<br>
-'''''Contact:''''' Jean-Baptiste Vimort, <email>jb.vimort@kitware.com</email><br>
+'''''Contact:''''' Jean-Baptiste Vimort, jb.vimort{{@}}kitware.com<br>
 '''''Acknowledgments:''''' This work was supported by the National Institute of Health (NIH) National Institute for Dental and Craniofacial Research (NIDCR) grant R21DE025306 (Textural Biomarkers of Arthritis for the Subchondral Bone in the Temporomandibular Joint), NIDCR grant R01DE024450 (Quantification of 3D bony Changes in
 Temporomandibular Joint Osteoarthritis) and National Institute of Biomedical Imaging and Bioengineering NIBIB) grant R01EB021391 (Shape Analysis Toolbox for Medical Image Computing Projects).<br>

Documentation/4.10/Extensions/BoneTextureExtesion - Revision history

Grundlett: Text replacement - "(.*)@(.*)<\/email>" to "$1{{@}}$2"

UpdateBot: Nightly -> 4.10

Grundlett: Text replacement - "(.)@(.)<\/email>" to "$1{{@}}$2"