Difference between revisions of "Documentation/Nightly/Extensions/LesionSimulator"

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Anomalous diffusion processes (ADP) are mathematically denoted by a power law in the Fokker-Planck equation, leading to the generalized form. There are several generalizations of the Fokker-Plank equation, which should give many different partial differential equations (PDEs). Here we adopt only the so-called porous media form, allowing the super-diffusive and the subdiffusive processes. <ref>Tsallis, C. (2009). Introduction to Nonextensive Statistical Mechanics: Approaching a Complex World. Springer.</ref> In porous media, channels are created promoting or blocking the flow of the density function, which has been proved to provide a suitable application on MRI filtering.<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>
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This extension offer a set of tools for brain lesion simulation, based on MRI images. At moment, the module MS Lesion Simulator is available, where it can simulates both baseline scan lesion volumes (given a lesion load) and longitudinal image simulations. The general procedure describe in the MS Lesion Simulator is described in the [http://dx.doi.org/ original paper].
  
  
 
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*[[Documentation/{{documentation/version}}/Modules/AADImageFilter|AAD Image Filter]]
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*[[Documentation/{{documentation/version}}/Modules/|MS Baseline Lesion Simulator]]
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*[[Documentation/{{documentation/version}}/Modules/IADImageFilter|IAD Image Filter]]
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*[[Documentation/{{documentation/version}}/Modules/|MS Longitudinal Lesion Simulator]]
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*[[Documentation/{{documentation/version}}/Modules/AADDiffusionWeightedData|AAD on DWI Image]]
 
  
 
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Most frequently used for these scenarios:
 
Most frequently used for these scenarios:
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* Use Case 1: a
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* Use Case 1: Simulate different anatomical/clinical MS lesions patterns on healthy individuals MRI images
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**In the baseline scan approach, it is offered a simulation procedure where a determined lesion load is reconstructed using a subject specific anatomical features, resulting in a realistic MS lesion load simulation.
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* Use Case 2: Simulate longitudinal MS lesion progression on clinical healthy individuals MRI images
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**
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<gallery widths="200px" perrow="3">
 
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Image:MRI_raw.png|Raw T1 weighted MRI Image
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Image:LesionLoad_2mL.png|
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Image:MRI_AAD.png|T1 weighted MRI Image with AAD filter (q=1.2)
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Image:LesionLoad_5mL.png|
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Image:MRI_IAD.png|T1 weighted MRI Image with IAD filter (q=1.2)
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Image:LesionLoad_40mL.png|
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Image:DTI_FA_raw.png|DTI-FA map without image filtering process
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Image:MNI152_orig.png|
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Image:DTI_FA_AAD.png|DTI-FA map with AAD image filtering (q=0.4)
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Image:MNI152_lesionload40mL.png|
 
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Revision as of 18:49, 12 December 2016

Home < Documentation < Nightly < Extensions < LesionSimulator


For the latest Slicer documentation, visit the read-the-docs.


Introduction and Acknowledgements

This work was partially funded by CAPES and CNPq, a Brazillian Agencies. Information on CAPES can be obtained on the CAPES website and CNPq website.
Author: Antonio Carlos da S. Senra Filho, CSIM Laboratory (University of Sao Paulo, Department of Computing and Mathematics)
Contact: Antonio Carlos da S. Senra Filho <email>acsenrafilho@usp.br</email>

CSIM Laboratory  
University of Sao Paulo  
CNPq Brazil  
CAPES Brazil  


Extension Description

LesionSimulator-logo.png

This extension offer a set of tools for brain lesion simulation, based on MRI images. At moment, the module MS Lesion Simulator is available, where it can simulates both baseline scan lesion volumes (given a lesion load) and longitudinal image simulations. The general procedure describe in the MS Lesion Simulator is described in the original paper.


Modules

Use Cases

Most frequently used for these scenarios:

  • Use Case 1: Simulate different anatomical/clinical MS lesions patterns on healthy individuals MRI images
    • In the baseline scan approach, it is offered a simulation procedure where a determined lesion load is reconstructed using a subject specific anatomical features, resulting in a realistic MS lesion load simulation.
  • Use Case 2: Simulate longitudinal MS lesion progression on clinical healthy individuals MRI images
  • LesionLoad 2mL.png
  • LesionLoad 5mL.png
  • LesionLoad 40mL.png
  • MNI152 orig.png
  • MNI152 lesionload40mL.png

Similar Extensions

N/A

References

  • paper

Information for Developers

Work in progress
 Section under construction.


Repositories:

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