Difference between revisions of "UNC SPHARM-PDM Tutorial"

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[[Image:SPHARMPDM_Logo.gif |300px|thumb|right]]  
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[[Image:SPHARMPDM_Logo.gif |SOME OUTPUTS: Triangular mesh representation of the input segmentation - The first triangular mesh,mapped in the sphere - Spherical representation of the harmonic representation of the input parameterization - DistanceMap colorMap(after MANCOVA) and Particle |300px|thumb|right]]  
  
  
  
= '''SPHARM-PDM''' ('''SP'''herical '''HARM'''onic - '''P'''oint '''B'''ased '''M'''odel) Slicer3 Tutorial=
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= ShapeAnalysisModule=
  
 
==Overview==
 
==Overview==
  
SPHARM-PDM is a tool that computes point-based models using a parametric boundary description. The two following tutorials will allow you to perform :
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Shape analysis has become of increasing interest to the medical community due to its potential to precisely locate morphological changes between healthy and pathological structures. SPHARM-PDM is a tool that computes point-based models using a parametric boundary description for the computing of Shape analysis.
* '''Step by step analysis''': With the ShapeAnalysisModule tutorial,you will learn how to load input volumes, run the module to generate triangulated surfaces with inherent correspondences and visualize them thanks to an intuitive quality control.
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The point-based models computed with the SPHARM-PDM tool can be used in combination with the also UNC designed statistical tool
* '''Step by step analysis''': With the ShapeAnalysisMANCOVA_Wizard tutorial, you will learn how to use this graphic interface to load meshes, run a group test in order to get statistical result, displayed through MRML scene.
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[[UNC MANCOVA Tutorial| shapeAnalysisMANCOVA]] to perform quantitative morphological assessment of structural changes at specific locations.
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* '''Step by step analysis''': With the ShapeAnalysisModule tutorial,you will learn how to load input volumes, run the module to generate triangulated surfaces with inherent correspondences and visualize them thanks to an intuitive quality control. Indeed,compared with previous versions, the ParticleModule is now part of ShapeAnaysisModule.
  
  
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'''ShapeAnalysisModule tutorial''' :  to perform structural shape analysis.[[Media:ShapeAnalysisModule-Tutorial.ppt|‏ [ppt]]][[Media:ShapeAnalysisModule-Tutorial.pdf|‏ [pdf]]]
 
'''ShapeAnalysisModule tutorial''' :  to perform structural shape analysis.[[Media:ShapeAnalysisModule-Tutorial.ppt|‏ [ppt]]][[Media:ShapeAnalysisModule-Tutorial.pdf|‏ [pdf]]]
  
'''shapeAnalysisMANCOVA_Wizard tutorial''' :  to perform statistical shape analysis.[[Media:ShapeAnalysisMANCOVA Wizard-Tutorial.ppt|‏ [ppt]]][[Media:shapeAnalysisMANCOVA_Wizard-Tutorial.pdf|‏ [pdf]]]
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==Software==
 
==Software==
Slicer3
 
http://www.slicer.org/pages/Downloads
 
  
BatchMake‏
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[http://www.slicer.org/pages/Downloads Slicer3.6.3]
http://www.batchmake.org/batchmake/resources/software.html
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[http://www.nitrc.org/frs/?group_id=308 Slicer3 External modules  -including BatchMake Description files]
  
  
 
==Tutorial materials==
 
==Tutorial materials==
  
[http://www.nitrc.org/frs/?group_id=308 External modules  -included BatchMake Application-]
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'''ShapeAnalysisModule data ''':  
 
'''ShapeAnalysisModule data ''':  
* on NITRC [http://www.nitrc.org/docman/index.php?group_id=308&selected_doc_group_id=760&language_id=1#folder ShapeAnalysisModuleTutorialData_TutorialContestSummer2011]  
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*[http://www.nitrc.org/docman/index.php?group_id=308&selected_doc_group_id=760&language_id=1#folder Link to NITRC ]  
* or directly [[Media:ShapeAnalysisModuleTutorialData_TutorialContestSummer2011.zip|‏ here]]
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* or directly here :[[Media:ShapeAnalysisModuleTutorialData_TutorialContestSummer2011.zip|‏ ShapeAnalysisModuleTutorialData_TutorialContestSummer2011.zip]]
  
'''ShapeAnalysisMANCOVA_Wizard data ''':  ''NB: You can also use the output file of ShapeAnalysisModule.''
 
* on NITRC [http://www.nitrc.org/docman/index.php?group_id=294&selected_doc_group_id=1966&language_id=1#folder ShapeAnalysisMANCOVA_WizardTutorialData_TutorialContestSummer2011]
 
* or directly [[Media:ShapeAnalysisMANCOVA_WizardTutorialData_TutorialContestSummer2011.zip|‏ here]]
 
  
  
 
==Complementary documentation==
 
==Complementary documentation==
  
[http://www.insight-journal.org/browse/publication/694  Insight Journal : Local Shape Analysis using MANCOVA]
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* Joshua Cates, Manasi Datar, P Thomas Fletcher and Ross Whitaker, [https://gforge.sci.utah.edu/gf/project/shapeworks/frs/?action=FrsReleaseBrowse&frs_package_id=4 ShapeWorksManual]
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* Martin Styner, Ipek Oguz, Shun Xu, Christian Brechb¨hler, Dimitrios Pantazis, Guido Gerig, [http://www.google.com/url?sa=t&source=web&cd=1&ved=0CBsQFjAA&url=http%3A%2F%2Fciteseerx.ist.psu.edu%2Fviewdoc%2Fdownload%3Fdoi%3D10.1.1.123.4306%26rep%3Drep1%26type%3Dpdf&rct=j&q=Statistical%20Shape%20Analysis%20of%20Brain%20Structures%20using%20%20%20%20%20%20%20%20%20%20%20%20%20%20%20%20%20%20%20SPHARM-PDM&ei=pi3pTYBWw-DRAbr-5bcB&usg=AFQjCNGrxZqRx0o11lMsULIPCJI6J728Gw&sig2=VzPjzlOFiwiOw3UJmOFgJQ Statistical Shape Analysis of Brain Structures using SPHARM-PDM]
  
 
==People==
 
==People==
 
Lucile Bompard  
 
Lucile Bompard  
 
<br>Clement Vachet
 
<br>Clement Vachet
<br>Mark Scully
 
 
<br>Beatriz Paniagua
 
<br>Beatriz Paniagua
 
<br>Martin Styner
 
<br>Martin Styner
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==[http://wiki.na-mic.org/Wiki/index.php/Summer_2011_Tutorial_Contest Back to tutorial contest]==

Latest revision as of 15:38, 13 June 2011

Home < UNC SPHARM-PDM Tutorial
SOME OUTPUTS: Triangular mesh representation of the input segmentation - The first triangular mesh,mapped in the sphere - Spherical representation of the harmonic representation of the input parameterization - DistanceMap colorMap(after MANCOVA) and Particle


ShapeAnalysisModule

Overview

Shape analysis has become of increasing interest to the medical community due to its potential to precisely locate morphological changes between healthy and pathological structures. SPHARM-PDM is a tool that computes point-based models using a parametric boundary description for the computing of Shape analysis. The point-based models computed with the SPHARM-PDM tool can be used in combination with the also UNC designed statistical tool shapeAnalysisMANCOVA to perform quantitative morphological assessment of structural changes at specific locations.

  • Step by step analysis: With the ShapeAnalysisModule tutorial,you will learn how to load input volumes, run the module to generate triangulated surfaces with inherent correspondences and visualize them thanks to an intuitive quality control. Indeed,compared with previous versions, the ParticleModule is now part of ShapeAnaysisModule.


Tutorials

ShapeAnalysisModule tutorial : to perform structural shape analysis.‏ [ppt]‏ [pdf]


Software

Slicer3.6.3

Slicer3 External modules -including BatchMake Description files


Tutorial materials

ShapeAnalysisModule data :


Complementary documentation

People

Lucile Bompard
Clement Vachet
Beatriz Paniagua
Martin Styner


Back to tutorial contest