Documentation/Nightly/Modules/PETTumorSegmentationEffect - Revision history

Chribaue: updated funding sources

2017-06-19T15:21:03Z

updated funding sources

Chribaue at 18:40, 14 February 2017

2017-02-14T18:40:41Z

Chribaue: added link to paper

2016-07-12T13:46:57Z

added link to paper

Chribaue: updated publication

2016-05-16T15:07:33Z

updated publication

Chribaue at 19:59, 16 March 2015

2015-03-16T19:59:54Z

Chribaue at 19:59, 16 March 2015

2015-03-16T19:59:30Z

Chribaue at 19:26, 9 March 2015

2015-03-09T19:26:59Z

Chribaue at 22:49, 16 February 2015

2015-02-16T22:49:19Z

Chribaue at 18:44, 19 January 2015

2015-01-19T18:44:03Z

Chribaue at 16:59, 16 January 2015

2015-01-16T16:59:41Z

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 Acknowledgments:
-The UIowa [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin QIN] PET Tumor Segmentation tool was  is funded in part by [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin/iowa Quantitative Imaging to Assess Response in Cancer Therapy Trials] NIH grant U01-CA140206 and [http://qiicr.org Quantitative Image Informatics for Cancer Research (QIICR)] NIH grant U24 CA180918. <br>
+The UIowa [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin QIN] PET Tumor Segmentation tool was  is funded in part by [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin/iowa Quantitative Imaging to Assess Response in Cancer Therapy Trials] NIH grant U01-CA140206 and [http://qiicr.org Quantitative Image Informatics for Cancer Research (QIICR)] NIH grant U24 CA180918, and Graph-based Medical Image Segmentation in 3D and 4D NIH grant R01 EB004640.<br>
 Authors: Christian Bauer (University of Iowa), Markus van Tol (University of Iowa) <br>
 Contributors: Ethan Ulrich (University of Iowa), Andrey Fedorov (SPL), Reinhard Beichel (University of Iowa), John Buatti (University of Iowa)<br>

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 {{documentation/{{documentation/version}}/module-section|Module Description}}
-Editor Effect for segmentation of tumors and hot lymph nodes in PET scans. Click on a lesion (tumor or hot lymph node) in a PET scan to segment it with one click. For cases where the initial segmentation does not provide the desired result, the tool provides functionality to refine the segmentation with few clicks. Options may help deal with complicated cases such as segmenting individual lymph nodes in a lymph node chain.
+Labelmap Editor Effect for segmentation of tumors and hot lymph nodes in PET scans. Click on a lesion (tumor or hot lymph node) in a PET scan to segment it with one click. For cases where the initial segmentation does not provide the desired result, the tool provides functionality to refine the segmentation with few clicks. Options may help deal with complicated cases such as segmenting individual lymph nodes in a lymph node chain.
 [[File:PETTumorSegmentation_Effect_with_models.png|800px|Screenshot]]

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-* R. R. Beichel, M. Van Tol, E. J. Ulrich, C. Bauer, T. Chang, K. A. Plichta, B. J. Smith, J. J. Sunderland, M. M. Graham, M. Sonka, J. M. Buatti: "Semiautomated Segmentation of Head and Neck Cancers in 18F-FDG PET Scans: A Just-Enough-Interaction Approach", in Medical Physics, 2016.
+* R. R. Beichel, M. Van Tol, E. J. Ulrich, C. Bauer, T. Chang, K. A. Plichta, B. J. Smith, J. J. Sunderland, M. M. Graham, M. Sonka, J. M. Buatti: "Semiautomated Segmentation of Head and Neck Cancers in 18F-FDG PET Scans: A Just-Enough-Interaction Approach", in Medical Physics, 2016. [http://dx.doi.org/10.1118/1.4948679 http://dx.doi.org/10.1118/1.4948679]
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-* R. R. Beichel, M. Van Tol, E. Ulrich, C. Bauer, T. Chang, K. A. Plichta, B. J. Smith, J. J. Sunderland, M. M. Graham, M. Sonka, J. M. Buatti: "Semi-automated Segmentation of Head and Neck Cancers using 18F-FDG PET Scans: A Just Enough Interaction Approach", 2015 (submitted)
+* R. R. Beichel, M. Van Tol, E. J. Ulrich, C. Bauer, T. Chang, K. A. Plichta, B. J. Smith, J. J. Sunderland, M. M. Graham, M. Sonka, J. M. Buatti: "Semiautomated Segmentation of Head and Neck Cancers in 18F-FDG PET Scans: A Just-Enough-Interaction Approach", in Medical Physics, 2016.
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-* R. R. Beichel, M. Van Tol, E. Ulrich, C. Bauer, T. Chang, K. A. Plichta, B. J. Smith, J. J. Sunderland, M. M. Graham, M. Sonka, J. M. Buatti: "Semi-automated Segmentation of Head and Neck Cancers using 18F-FDG PET Scans: A Just Enough Interaction Approach", in Medical Physics, 2015 (submitted)
+* R. R. Beichel, M. Van Tol, E. Ulrich, C. Bauer, T. Chang, K. A. Plichta, B. J. Smith, J. J. Sunderland, M. M. Graham, M. Sonka, J. M. Buatti: "Semi-automated Segmentation of Head and Neck Cancers using 18F-FDG PET Scans: A Just Enough Interaction Approach", 2015 (submitted)
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 Step 2) Go to the “Editor” module, select the volume loaded in Step 1 as the “Master Volume” in the “Create and Select Label Maps” drop-down menu.
-Step 3) Press the “PETTumorSegmentation” button.
+Step 3) Select the [[File:PETTumorSegmentationEffectIcon.png||PETTumorSegmentationEffectIcon]] "PETTumorSegmentationEffect".
 Step 4) Click on approximately the center of lesion (tumor or hot lymph node) to segment it. The algorithm automatically produces a segmentation, which can be inspected for quality and modified by the user if necessary (see Sections Segmentation Refinement and Tool Options below).
@@ Line 48: / Line 48: @@
 [[File:PETTumorSegmentationEffect_options.png|thumb|400px|PET Tumor Segmentation Editor Effect Options]]
-In cases where the algorithm was not able to produce the desired segmentation with one click, the segmentation can be refined using these three segmentation refinement styles:
+In cases where the algorithm was not able to produce the desired segmentation with one click, the user may interactively refine the the segmentation using these three interaction styles:
-* Refinement style "None": Create a new segmentation with the same label as the previous segmentation. After selection, click approximately at the center of the new region to segment.
+* Interaction style "Create new": Create a new segmentation with the same label as the previous segmentation. After selection, click approximately at the center of the new region to segment.
-* Refinement style "Global": Choose this option in cases where the whole segmentation appears to be too large or too small. After selection, click on a point the new boundary should go through. This changes the whole boundary of the segmentation.
+* Interaction style "Global refinement": Choose this option in cases where the whole segmentation appears to be too large or too small. After selection, click on a point the new boundary should go through. This changes the whole boundary of the segmentation.
-* Refinement style "Local": Choose this option in cases where most of the segmentation appears correct, but there are local segmentation errors. After selection, click on a point the new boundary should go through. This changes the boundary of the segmentation in the area of the segmentation error.
+* Interaction style "Local refinement": Choose this option in cases where most of the segmentation appears correct, but there are local segmentation errors. After selection, click on a point the new boundary should go through. This changes the boundary of the segmentation in the area of the segmentation error.
-All refinement options can be applied several times until the desired segmentation result is obtained.
+All interaction sytles can be applied several times until the desired segmentation result is obtained.
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@@ Line 10: / Line 10: @@
 Acknowledgments:
 This work is funded in part by [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin/iowa Quantitative Imaging to Assess Response in Cancer Therapy Trials] NIH grant U01-CA140206 and [http://qiicr.org Quantitative Image Informatics for Cancer Research (QIICR)] NIH grant U24 CA180918. <br>
-Contributors: Christian Bauer (University of Iowa), Markus van Tol (University of Iowa), Ethan Ulrich (University of Iowa), Reinhard Beichel (University of Iowa), John Buatti (University of Iowa)<br>
+Authors: Christian Bauer (University of Iowa), Markus van Tol (University of Iowa) <br>
-Contact: Christian Bauer, <email>christian-bauer@uiowa.edu</email><br>
+Contributors: Ethan Ulrich (University of Iowa), Andrey Fedorov (SPL), Reinhard Beichel (University of Iowa), John Buatti (University of Iowa)<br>
 License: [http://www.slicer.org/pages/LicenseText Slicer License]