Documentation/Nightly/Modules/LSContrastEnhancer - Revision history

Acsenrafilho at 18:55, 16 February 2017

2017-02-16T18:55:00Z

Acsenrafilho at 15:53, 9 December 2016

2016-12-09T15:53:48Z

Acsenrafilho at 14:54, 9 December 2016

2016-12-09T14:54:45Z

Acsenrafilho: Added wiki page for LSContrastEnhancer module

2016-11-18T19:29:29Z

Added wiki page for LSContrastEnhancer module

New page

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{{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}
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Extension: [[Documentation/{{documentation/version}}/Extensions/LesionSpotlight|LesionSpotlight]]<br>
Webpage: http://dcm.ffclrp.usp.br/csim/<br>
Author: Antonio Carlos da S. Senra Filho, CSIM Laboratory (University of Sao Paulo, Department of Computing and Mathematics)<br>
Contact: Antonio Carlos da S. Senra Filho, <email>acsenrafilho@usp.br</email><br>
{{documentation/{{documentation/version}}/module-introduction-row}}
{{documentation/{{documentation/version}}/module-introduction-logo-gallery
|Image:CSIM-logo.png|CSIM Laboratory
|Image:USP-logo.png|University of Sao Paulo
|Image:CAPES-logo.png|CAPES Brazil
}}
{{documentation/{{documentation/version}}/module-introduction-end}}


{{documentation/{{documentation/version}}/module-section|Module Description}}
This module offer a simple application ...


{{documentation/{{documentation/version}}/module-section|Use Cases}}
* Use Case 1:
**Something.
<gallery widths="200px" perrow="3">
Image:LSSegmenter_FLAIR.png|Input T2-FLAIR image with multiple sclerosis lesions
Image:LSSegmenter_Label.png|Lesion map resulted from LSSegmenter module
</gallery>


{{documentation/{{documentation/version}}/module-section|Panels and their use}}

[[Image:lssegmenter_gui.png|thumb|380px|User Interface]]
IO:
*Input Volume
**Select the input image
*Output Volume
**Set the output image file which the filters should place the final result

... Parameters:
*Conductance
**The conductance regulates the diffusion intensity in the neighbourhood area. Choose a higher conductance if the input image has strong noise seem in the whole image space.
* See the reference paper<ref>Da S Senra Filho, A. C., Garrido Salmon, C. E., & Murta Junior, L. O. (2015). Anomalous diffusion process applied to magnetic resonance image enhancement. Physics in Medicine and Biology, 60(6), 2355–2373. doi:10.1088/0031-9155/60/6/2355</ref> to choose the appropriate q value (at moment, only tested in MRI T1 and T2 weighted images).


{{documentation/{{documentation/version}}/module-section|Similar Modules}}
*[[Documentation/{{documentation/version}}/Modules/IADImageFilter|IAD Image Filter]]


{{documentation/{{documentation/version}}/module-section|References}}
* paper


{{documentation/{{documentation/version}}/module-section|Information for Developers}}
{{documentation/{{documentation/version}}/module-developerinfo}}


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@@ Line 24: / Line 24: @@
 [[Image:LSContrastEnhancer-icon.png|right]]
-This Module offer a method to increase hyperintense lesions on T2-FLAIR MRI acquisitions, which is mainly applicable in Multiple Sclerosis lesion detection.
+This module offers a method to increase the contrast of structures confined in a defined regions of the image. This method is specially useful for the hyperintense Multiple Sclerosis lesion segmentation due to the previous increase of signal contrast between the MS lesion and the surounding area (usually denoted as the normal appearing white matter).
 <!-- ---------------------------- -->
 {{documentation/{{documentation/version}}/module-section|Use Cases}}
-* Use Case 1: Increase contrast in abnormal voxels in white matter
+* Use Case 1: Increase signal contrast of abnormal voxels in white matter brain region
-**There are some lesion segmentation approaches that relies on the voxel intensity level presented in the lesion signal, where the LS Contrast Enhancer module can be helpful to increase the contrast between lesions and surrounding brain tissues (mainly White Matter)
+**There are some lesion segmentation approaches that relies on the voxel intensity level presented in the lesion signal, where the '''LS Contrast Enhancer''' module can be helpful to increasing the signal contrast between lesions and surrounding brain tissues (mainly normal appearing white matter)
 <gallery widths="300px" heights="300px" perrow="3">
@@ Line 79: / Line 79: @@
 <!-- ---------------------------- -->
 {{documentation/{{documentation/version}}/module-section|Similar Modules}}
-*[[Documentation/{{documentation/version}}/Modules/IADImageFilter|IAD Image Filter]]
+N/A
 <!-- ---------------------------- -->

@@ Line 22: / Line 22: @@
 <!-- ---------------------------- -->
 {{documentation/{{documentation/version}}/module-section|Module Description}}
-This module offer a simple application ...
+[[Image:LSContrastEnhancer-icon.png|right]]
 <!-- ---------------------------- -->
 {{documentation/{{documentation/version}}/module-section|Use Cases}}
-* Use Case 1:
+* Use Case 1: Increase contrast in abnormal voxels in white matter
-**Something.
+**There are some lesion segmentation approaches that relies on the voxel intensity level presented in the lesion signal, where the LS Contrast Enhancer module can be helpful to increase the contrast between lesions and surrounding brain tissues (mainly White Matter)
-<gallery widths="200px" perrow="3">
-Image:LSSegmenter_FLAIR.png|Input T2-FLAIR image with multiple sclerosis lesions
+<gallery widths="300px" heights="300px" perrow="3">
-Image:LSSegmenter_Label.png|Lesion map resulted from LSSegmenter module
+Image:T2FLAIR_beforeContrast.png|Input T2-FLAIR image with Multiple Sclerosis lesions
 </gallery>
@@ Line 38: / Line 41: @@
 [[Image:lscontrastenhancer_gui.png|thumb|380px|User Interface]]
-IO:
+Input/Output Parameters:
 *Input Volume
 *Output Volume
-**Set the output image file which the filters should place the final result
+**Output enhanced volume
-... Parameters:
+Noise Attenuation Parameters:
 *Conductance
 **The conductance regulates the diffusion intensity in the neighbourhood area. Choose a higher conductance if the input image has strong noise seem in the whole image space.
-* See the reference paper<ref>Da S Senra Filho, A. C., Garrido Salmon, C. E., & Murta Junior, L. O. (2015). Anomalous diffusion process applied to magnetic resonance image enhancement. Physics in Medicine and Biology, 60(6), 2355–2373. doi:10.1088/0031-9155/60/6/2355</ref> to choose the appropriate q value (at moment, only tested in MRI T1 and T2 weighted images).
+*Number Of Iterations
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@@ Line 37: / Line 37: @@
 {{documentation/{{documentation/version}}/module-section|Panels and their use}}
-[[Image:lssegmenter_gui.png|thumb|380px|User Interface]]
+[[Image:lscontrastenhancer_gui.png|thumb|380px|User Interface]]
 IO:
 *Input Volume