Documentation/Nightly/Extensions/LesionSpotlight

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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

This extension provides image segmentation and enhancement approaches in order to increase the abnormal white matter voxels in magnetic resonance images. At moment, there are available the LS Segmenter module (specific for hyperintense Multiple Sclerosis lesion segmentation on T2-FLAIR images) and LS Contrast Enhancement Module (specific to increase the contrast of abnormal voxels of the same T2-FLAIR images). The LS Contrast Enhancement module can be used as an image enhancement pre-processing step before a future lesion segmentation algorithm (which could be used any other approach, such as LesionTOADS, OASIS or LST). The LS Segmenter module implements a hyperintense T2-FLAIR lesion segmentation based on the algorithm published in the paper Cabezas, M. et al.

NOTE: The Logistic Contrast Enhancement, Weighted Enhancement Image Filter and Automatic FLAIR Threshold modules are only supporting CLI methods added here to apply part of the other modules. For this reason these modules are not supposed to be used alone. Please, use the LS Contrast Enhancer or LS Segmenter modules only.

Modules

• LS Segmenter
• LS Contrast Enhancer

Use Cases

Most frequently used for these scenarios:

• Use Case 1: Multiple Sclerosis (MS) hyperintense lesions segmentation
  • Hyperintense Multiple Sclerosis lesions, mainly in T2-FLAIR images, have a easy application of this segmentations procedure.
• Use Case 2: Increase contrast in abnormal voxels in 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 increase the contrast between lesions and surrounding brain tissues (mainly White Matter).

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  T2-FLAIR image from a MS patient

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  T2-FLAIR hyperintense lesion segmentation provided by the LS Segmenter module

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  Lesion and White Matter 3D representation

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  T2-FLAIR image with original lesion contrast

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  T2-FLAIR image with hyperintense lesion contrast enhanced provided by the LS Contrast Enhancer module

Similar Extensions

N/A

References

• paper

Information for Developers

Repositories:

• Source code: GitHub repository
• Issue tracker: open issues and enhancement requests