Difference between revisions of "Documentation/Nightly/Extensions/PET-IndiC"

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The PET-IndiC Extension allows for fast segmentation of regions of interest and calculation of quantitative indices.
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The PET-IndiC Extension allows calculation of quantitative indices related to PET scans such as as Peak, Volume, Total lesion Glycolysis (TLG) and includes:
  
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{{#ev:youtube|https://www.youtube.com/watch?v=_JXxFSa_vzc}}
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* [[Documentation/{{documentation/version}}/Modules/QuantitativeIndicesTool|Quantitative Indices Tool]] GUI module for use with labelmaps
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* [[Documentation/{{documentation/version}}/Modules/PETVolumeSegmentStatisticsPlugin|PET Volume Segment Statistics Plugin]] that integrates with Slicer's [https://slicer.readthedocs.io/en/latest/user_guide/modules/segmentstatistics.html Segment Statistics module] module for use with Slicer's Segments.
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A detailed description of all supported indices can be found in [[Documentation/{{documentation/version}}/Modules/QuantitativeIndicesCLI#Index:_Description_.28units_for_SUVbw_images.29|Quantitative Indices CLI]]. To provide proper units for gray-value dependent indices, the image dataset must be loaded from a DICOM dataset via Slicer's [https://slicer.readthedocs.io/en/latest/user_guide/modules/dicom.html DICOM module].
  
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==USAGE==
 
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PET-IndiC is an extension of the main Editor module in Slicer
 
 
{|
 
{|
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|[[Image:PET-IndiC_Screenshot1.png|thumb|800px|PET-IndiC Interface]]
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|[[File:QuantitativeIndicesTool Screenshot3.png.png|thumb|350px|Quantitative Indices Tool GUI module]]
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|[[Image:QuantitativeIndicesTool_Screenshot2.png|thumb|350px|Lesion labelmap]]
 
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After selecting an input image, a label image is automatically assigned. Window/Level presets are available for PET SUV images. For import of DICOM PET images as SUV images, see the [[Documentation/{{documentation/version}}/Extensions/PETDICOM|PET DICOM Extension]].
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{|
 
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|[[Image:PET-IndiC_Screenshot2.png|thumb|375px|FDG PET (Inverted Grey)]]
 
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|[[Image:PET-IndiC_Screenshot3.png|thumb|375px|FDG PET (Rainbow)]]
 
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Segment the image using the Editor tools. The PET-IndiC Extension is meant to be coupled with the [[Documentation/{{documentation/version}}/Extensions/PETTumorSegmentation|PET-SEG Extension]] editor effect.
 
 
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{|
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|[[Image:PET-IndiC_Screenshot4.png|thumb|600px|Editor Effect options]]
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|[[File:PETSegmentStatisticsPluginAnnotated.png||thumb|750px|PET Volume Segment Statistics Plugin]]  
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}
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Quantitative indices are calculated automatically whenever a new label is created or the current label is modified. Several indices are available for calculation. The output appears as a table that can be copied and pasted into a spreadsheet.
 
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|[[Image:PET-IndiC_Screenshot5.png|thumb|700px|Quantitative indices options and output.]]
 
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{{documentation/{{documentation/version}}/extension-section|Modules}}
 
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*[[Documentation/{{documentation/version}}/Modules/QuantitativeIndicesCLI|Quantitative Indices CLI]]
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*[[Documentation/{{documentation/version}}/Modules/QuantitativeIndicesTool|Quantitative Indices Tool]] for use with labelmaps
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*[[Documentation/{{documentation/version}}/Modules/QuantitativeIndicesTool|Quantitative Indices Tool]]
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*[[Documentation/{{documentation/version}}/Modules/PETVolumeSegmentStatisticsPlugin|PET Volume Segment Statistics Plugin]] for use with Slicer Segments
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*[[Documentation/{{documentation/version}}/Modules/PETVolumeSegmentStatisticsPlugin|PET Volume Segment Statistics Plugin]]
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*[[Documentation/{{documentation/version}}/Modules/QuantitativeIndicesCLI|Quantitative Indices CLI]] for command line usage outside of the Slicer GUI
  
 
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Revision as of 17:52, 18 March 2022

Home < Documentation < Nightly < Extensions < PET-IndiC


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


PET-IndiC.png

Introduction and Acknowledgements

Acknowledgments: The UIowa QIN PET-IndiC Extension was funded in part by Quantitative Imaging to Assess Response in Cancer Therapy Trials NIH grant U01-CA140206 and Quantitative Image Informatics for Cancer Research (QIICR) NIH grant U24 CA180918.
Authors: Ethan Ulrich (University of Iowa)
Contributors: Markus van Tol (University of Iowa), Christian Bauer (University of Iowa), Andrey Fedorov (SPL), Reinhard Beichel (University of Iowa), John Buatti (University of Iowa)
Contact: <email>qin@iibi.uiowa.edu</email>

License: Slicer License

The University of Iowa (UIowa)  
Quantitative Image Informatics for Cancer Research  
National Alliance for Medical Image Computing (NA-MIC)  

Extension Description

The PET-IndiC Extension allows calculation of quantitative indices related to PET scans such as as Peak, Volume, Total lesion Glycolysis (TLG) and includes:


A detailed description of all supported indices can be found in Quantitative Indices CLI. To provide proper units for gray-value dependent indices, the image dataset must be loaded from a DICOM dataset via Slicer's DICOM module.

Quantitative Indices Tool GUI module
Lesion labelmap
[[File:PETSegmentStatisticsPluginAnnotated.png 750px|PET Volume Segment Statistics Plugin]]

}

Modules

Information for Developers
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