Slicer 3.6:Training - Revision history

Spujol at 14:24, 28 January 2020

2020-01-28T14:24:14Z

Grundlett: Text replacement - "\[http:\/\/www\.slicer\.org\/slicerWiki\/images\/([^ ]+) ([^]]+)]" to "[http://www.slicer.org/w/img_auth.php/$1 $2]"

2019-11-27T12:39:06Z

Text replacement - "\[http:\/\/www\.slicer\.org\/slicerWiki\/images\/([^ ]+) ([^]]+)]" to "[http://www.slicer.org/w/img_auth.php/$1 $2]"

Grundlett: Text replacement - "http://wiki.slicer.org/slicerWiki/images/" to "http://www.slicer.org/w/img_auth.php/"

2019-11-27T12:30:50Z

Text replacement - "http://wiki.slicer.org/slicerWiki/images/" to "http://www.slicer.org/w/img_auth.php/"

Grundlett: Text replacement - "\[http:\/\/www\.slicer\.org\/slicerWiki\/index\.php\/([^ ]+) ([^]]+)]" to "$2"

2019-11-27T02:20:56Z

Text replacement - "\[http:\/\/www\.slicer\.org\/slicerWiki\/index\.php\/([^ ]+) ([^]]+)]" to "$2"

Grundlett: Text replacement - "\[http:\/\/wiki\.slicer\.org\/slicerWiki\/index\.php\/([^ ]+) ([^]]+)]" to "$2"

2019-11-27T02:15:06Z

Text replacement - "\[http:\/\/wiki\.slicer\.org\/slicerWiki\/index\.php\/([^ ]+) ([^]]+)]" to "$2"

Spujol at 16:22, 4 September 2012

2012-09-04T16:22:10Z

Pieper: /* External Resources */

2012-04-11T21:09:58Z

External Resources

Haehn: /* Summer 2011 Tutorial Contest Entries (under construction) */

2011-11-16T17:11:42Z

Summer 2011 Tutorial Contest Entries (under construction)

Haehn: /* Summer 2011 Tutorial Contest Entries (under construction) */

2011-11-15T04:07:37Z

Summer 2011 Tutorial Contest Entries (under construction)

Spujol at 16:38, 29 September 2011

2011-09-29T16:38:58Z

@@ Line 16: / Line 16: @@
 | id="Slicer3MinuteTutorial" style="background:#FFFFCC; color:blue; font-size:110%" align="center"| '''Core'''
 | style="background:#FFFFCC; color:black" valign="top"| '''[[Media:Slicer3Minute_SoniaPujol_3.6.1.pdf  | Slicer3Minute Tutorial]]'''<br><br><br>The Slicer3Minute tutorial is an introduction to the advanced 3D visualization capabilities of Slicer3.6. <br><br>'''Audience:''' First time users.
-| style="background:#FFFFCC; color:black" valign="top" | '''[http://www.slicer.org/slicerWiki/images/5/51/Slicer3MinuteDataset.zip Slicer3Minute Data]'''<br><br> The Slicer3Minute dataset contains an MR scan of the brain and 3D reconstructions of the anatomy
+| style="background:#FFFFCC; color:black" valign="top" | '''[http://www.slicer.org/w/img_auth.php/5/51/Slicer3MinuteDataset.zip Slicer3Minute Data]'''<br><br> The Slicer3Minute dataset contains an MR scan of the brain and 3D reconstructions of the anatomy
 | style="background:#FFFFCC; color:black" align="center"| [[Image:Slicer3Minute_3.6RC2.png |250px]]
 |-
 | id="Slicer3VisualizationTutorial" style="background:#FFFFCC; color:blue; font-size:110%" align="center"| '''Core'''
 | style="background:#FFFFCC; color:black" valign="top"| '''[[media:Slicer3_DataLoadingAndVisualization_UCSF2010_SoniaPujol.pdf‎‎ ‎ | Slicer3Visualization Tutorial]]'''<br><br><br>The Slicer3Visualization tutorial guides through 3D data loading and visualization in Slicer3.6.<br><br>'''Audience:''' All beginners including clinicians, scientists, engineers and programmers.
-| style="background:#FFFFCC; color:black" valign="top" | '''[http://www.slicer.org/slicerWiki/images/6/61/Slicer3VisualizationDataset.zip Slicer3Visualization Data]'''<br><br>The Slicer3VisualizationDataset contains two MR scans of the brain, a pre-computed labelmap and 3D reconstructions of the anatomy.
+| style="background:#FFFFCC; color:black" valign="top" | '''[http://www.slicer.org/w/img_auth.php/6/61/Slicer3VisualizationDataset.zip Slicer3Visualization Data]'''<br><br>The Slicer3VisualizationDataset contains two MR scans of the brain, a pre-computed labelmap and 3D reconstructions of the anatomy.
 | style="background:#FFFFCC; color:black" align="center"| [[Image:VisualizationTutorial 3.6RC3.png|250px]]
 |-
@@ Line 41: / Line 41: @@
 | id="ManualRegistration" style="background:#FFFFCC; color:blue; font-size:110%" align="center"|  '''Core'''
 | style="background:#FFFFCC; color:black" valign="top"|'''[[media:ManualRegistration_Slicer3.6.pdf‎  | Manual Registration]] ''' <br><br><br> Shows how to manually/interactively align two images in Slicer3.6 <br><br>'''Audience:''' First time & early users.
-| style="background:#FFFFCC; color:black" valign="top"|'''[http://www.slicer.org/slicerWiki/images/8/88/Slicer3_Tutorial_ManualRegistration_ExampleDataset.zip Manual Registration Data]'''<br><br>This dataset contains two brain MRI of a single subject, obtained in different orientations.
+| style="background:#FFFFCC; color:black" valign="top"|'''[http://www.slicer.org/w/img_auth.php/8/88/Slicer3_Tutorial_ManualRegistration_ExampleDataset.zip Manual Registration Data]'''<br><br>This dataset contains two brain MRI of a single subject, obtained in different orientations.
 | style="background:#FFFFCC; color:black" align="center"|[[Image:Slicer3_ManualRegistrationTutorial.gif|250px]]
 |-
 | id="DiffusionMRITutorial" style="background:#FFFFCC; color:blue; font-size:110%" align="center"| '''Specialized'''
 | style="background:#FFFFCC; color:black" valign="top"|'''[[Media:DiffusionMRITutorial_UCSF2010_SoniaPujol.pdf‎ | Diffusion MRI tutorial]]''' <br><br><br>This tutorial guides you through the process of loading diffusion MR data, estimating diffusion tensors, and performing tractography of white matter bundles. <br><br>'''Audience:''' All users and developers.
-| style="background:#FFFFCC; color:black" valign="top" |'''[http://www.slicer.org/slicerWiki/images/c/cf/DiffusionDataset.zip Diffusion Data]'''
+| style="background:#FFFFCC; color:black" valign="top" |'''[http://www.slicer.org/w/img_auth.php/c/cf/DiffusionDataset.zip Diffusion Data]'''
 | style="background:#FFFFCC; color:black" align="center"|[[Image:cc.PNG |250px]]
 |-
@@ Line 72: / Line 72: @@
 | id="EMSegmenterSimpleMode" style="background:#FFFFCC; color:blue; font-size:110%" align="center"|  '''Specialized'''
 | style="background:#FFFFCC; color:black"  valign="top"| [[media:EMSegmenterTutorialSimpleMode-Slicer-3.6.3-1.pdf | '''EMSegmenter Simple Mode ''']] <br><br> This tutorial takes the trainee through the segmentation of a MRI Human Brain without to adjust any parameters.
-| style="background:#FFFFCC; color:black" valign="top" | [http://www.slicer.org/slicerWiki/images/c/cd/MRIHumanBrain_T1_aligned.nrrd '''Human Brain T1 Data''']
+| style="background:#FFFFCC; color:black" valign="top" | [http://www.slicer.org/w/img_auth.php/c/cd/MRIHumanBrain_T1_aligned.nrrd '''Human Brain T1 Data''']
 | style="background:#FFFFCC; color:black" align="center"| [[Image:EMSegmenter-Simple-Mode.png|250px]]
 |-
 | id="EMSegmenterAdvancedMode" style="background:#FFFFCC; color:blue; font-size:110%" align="center"|  '''Specialized'''
 | style="background:#FFFFCC; color:black"  valign="top"| [[media:EMSegmenterTutorialAdvancedMode-Slicer-3.6.3-2.pdf | '''EMSegmenter Advanced Mode ''']] <br><br> This tutorial takes the trainee through the segmentation of a MRI Human Brain. The trainee will learn how to setup the EMSegmenter, this includes the creation of a task, the creation of an anatomical tree and adjusting the weights for the EM algorithm.
-| style="background:#FFFFCC; color:black" valign="top" | [http://www.slicer.org/slicerWiki/images/c/cd/MRIHumanBrain_T1_aligned.nrrd '''Human Brain T1 Data''']
+| style="background:#FFFFCC; color:black" valign="top" | [http://www.slicer.org/w/img_auth.php/c/cd/MRIHumanBrain_T1_aligned.nrrd '''Human Brain T1 Data''']
 | style="background:#FFFFCC; color:black" align="center"| [[Image:EMSegmenter-Advanced-Mode.png|250px]]
 |-
@@ Line 127: / Line 127: @@
 |-
 |  id="IAFEMesh" style="background:#FFFFFF ; color:blue; font-size:110%" align="center"|'''Specialized'''
-| style="background:#FFFFFF  color:black" valign="top"| [http://www.slicer.org/slicerWiki/images/1/13/IAFEMesh-TutorialContestSummer2010.pdf Meshing Workflow] <br><br> '''Audience:''' All users and developers. (Note: Mac and Linux only.)
+| style="background:#FFFFFF  color:black" valign="top"| [http://www.slicer.org/w/img_auth.php/1/13/IAFEMesh-TutorialContestSummer2010.pdf Meshing Workflow] <br><br> '''Audience:''' All users and developers. (Note: Mac and Linux only.)
 | style="background:#FFFFFF ; color:black" valign="top" | [[File:IAFEMeshData-TutorialContestSummer2010.zip|Meshing Workflow Data]]<br><br>
 | style="background:#FFFFFF ; color:black" align="center"| [[File:FEMesh.png |250px]]
@@ Line 147: / Line 147: @@
 |-
 | id="ProstateNav" style="background:#FFFFFF ; color:blue; font-size:110%" align="center"|'''Specialized'''
-| style="background:#FFFFFF ; color:black" valign="top"|[http://www.slicer.org/slicerWiki/images/0/06/ProstateNav_TutorialContestSummer2010.pdf Robot-Assisted MRI-Guided Prostate Biopsy] <br><br>'''Audience:''' All users and developers.
+| style="background:#FFFFFF ; color:black" valign="top"|[http://www.slicer.org/w/img_auth.php/0/06/ProstateNav_TutorialContestSummer2010.pdf Robot-Assisted MRI-Guided Prostate Biopsy] <br><br>'''Audience:''' All users and developers.
-| style="background:#FFFFFF ; color:black" valign="top" | [http://www.slicer.org/slicerWiki/images/3/3a/ProstateNavData_TutorialContestSummer2010.zip Robot-Assisted MRI-Guided Prostate Biopsy]
+| style="background:#FFFFFF ; color:black" valign="top" | [http://www.slicer.org/w/img_auth.php/3/3a/ProstateNavData_TutorialContestSummer2010.zip Robot-Assisted MRI-Guided Prostate Biopsy]
 | style="background:#FFFFFF ; color:black" align="center"| [[File:ProstateNav.png |250px]]
 |-
 | id="LabelFusion" style="background:#FFFFFF ; color:blue; font-size:110%" align="center"|'''Specialized'''
-| style="background:#FFFFFF ; color:black" valign="top"|[http://www.slicer.org/slicerWiki/images/0/0a/LabelFusion_Tutorial.pdf Atlas Label Fusion & Surface Registration] <br><br>'''Audience:''' All users and developers.
+| style="background:#FFFFFF ; color:black" valign="top"|[http://www.slicer.org/w/img_auth.php/0/0a/LabelFusion_Tutorial.pdf Atlas Label Fusion & Surface Registration] <br><br>'''Audience:''' All users and developers.
-| style="background:#FFFFFF ; color:black" valign="top" | [http://www.slicer.org/slicerWiki/images/2/27/AtlasLabelFusion_TutorialContestSummer2010.zip Atlas Label Fusion & Surface Registration]
+| style="background:#FFFFFF ; color:black" valign="top" | [http://www.slicer.org/w/img_auth.php/2/27/AtlasLabelFusion_TutorialContestSummer2010.zip Atlas Label Fusion & Surface Registration]
 | style="background:#FFFFFF ; color:black" align="center"| [[File:AtlasLabelFusion.png |250px]]
 |-
 | id="Stochastic_Tractography" style="background:#FFFFFF ; color:blue; font-size:110%" align="center"|'''Specialized'''
-| style="background:#FFFFFF ; color:black" valign="top"|[http://www.slicer.org/slicerWiki/images/9/90/Stochastic_Tractography_TutorialContestSummer2010.pdf Stochastic Tractography] <br><br>'''Audience:''' All users and developers. (Note: Mac and Linux only.)
+| style="background:#FFFFFF ; color:black" valign="top"|[http://www.slicer.org/w/img_auth.php/9/90/Stochastic_Tractography_TutorialContestSummer2010.pdf Stochastic Tractography] <br><br>'''Audience:''' All users and developers. (Note: Mac and Linux only.)
-| style="background:#FFFFFF ; color:black" valign="top" | [http://www.slicer.org/slicerWiki/images/7/70/Stochastic_tutorial_data_TutorialContestSummer2010.zip Stochastic Tractography]
+| style="background:#FFFFFF ; color:black" valign="top" | [http://www.slicer.org/w/img_auth.php/7/70/Stochastic_tutorial_data_TutorialContestSummer2010.zip Stochastic Tractography]
 | style="background:#FFFFFF ; color:black" align="center"| [[File:Stochastic_tutorial_uncinate.JPG |250px]]
 |-
 | id="PerkStationModule" style="background:#FFFFFF ; color:blue; font-size:110%" align="center"|'''Specialized'''
 | style="background:#FFFFFF ; color:black" valign="top"|[[File:PerkStationModule_TutorialContestSummer2010.pdf|PERK Station Module]] <br><br>'''Audience:''' All users and developers. (Note: Windows only.)
-| style="background:#FFFFFF ; color:black" valign="top" | [http://www.slicer.org/slicerWiki/images/3/36/PerkStationData_TutorialContestSummer2010.zip PERK Station Module]
+| style="background:#FFFFFF ; color:black" valign="top" | [http://www.slicer.org/w/img_auth.php/3/36/PerkStationData_TutorialContestSummer2010.zip PERK Station Module]
 | style="background:#FFFFFF ; color:black" align="center"| [[File:PERKStation.png |250px]]
 |-

@@ Line 132: / Line 132: @@
 |-
 | id="Fiducials" style="background:#FFFFFF ; color:blue; font-size:110%" align="center"|'''Specialized'''
-| style="background:#FFFFFF ; color:black" valign="top"| [http://wiki.slicer.org/slicerWiki/images/6/66/Fiducials_TutorialContestSummer2010.pdf Fiducials] <br><br>'''Audience:''' All users and developers.
+| style="background:#FFFFFF ; color:black" valign="top"| [http://www.slicer.org/w/img_auth.php/6/66/Fiducials_TutorialContestSummer2010.pdf Fiducials] <br><br>'''Audience:''' All users and developers.
 | style="background:#FFFFFF ; color:black" valign="top" | [http://wiki.na-mic.org/Wiki/index.php/File:Fiducials_TutorialContestSummer2010.zip Fiducials Data]<br><br>
 | style="background:#FFFFFF ; color:black" align="center"| [[File:Fiducials.png |250px]]
 |-
 | id="RobustStatisticSegmenter" style="background:#FFFFFF ; color:blue; font-size:110%" align="center"| '''Specialized'''
-| style="background:#FFFFFF ; color:black" valign="top"| [http://wiki.slicer.org/slicerWiki/images/3/3c/RSS_TutorialContestSummer2010.pdf Robust Statistic Segmenter] <br><br>'''Audience:''' All users and developers.
+| style="background:#FFFFFF ; color:black" valign="top"| [http://www.slicer.org/w/img_auth.php/3/3c/RSS_TutorialContestSummer2010.pdf Robust Statistic Segmenter] <br><br>'''Audience:''' All users and developers.
 | style="background:#FFFFFF ; color:black" valign="top" | [http://wiki.na-mic.org/Wiki/index.php/File:RSSData_TutorialContestSummer2010.zip Robust Statistic Segmenter Data]<br><br>
 | style="background:#FFFFFF ; color:black" align="center"| [[File:RSS.png |250px]]
 |-
 | id="LongitudinalLesionComparison" style="background:#FFFFFF ; color:blue; font-size:110%" align="center"|'''Specialized'''
-| style="background:#FFFFFF ; color:black" valign="top"|[http://wiki.slicer.org/slicerWiki/images/8/8c/Longitudinal_Lesion_Comparison_TutorialContest_2010.pdf Longitudinal Lesion Comparison] <br><br>'''Audience:''' All users and developers. (Note: Mac and Linux only.)
+| style="background:#FFFFFF ; color:black" valign="top"|[http://www.slicer.org/w/img_auth.php/8/8c/Longitudinal_Lesion_Comparison_TutorialContest_2010.pdf Longitudinal Lesion Comparison] <br><br>'''Audience:''' All users and developers. (Note: Mac and Linux only.)
 | style="background:#FFFFFF ; color:black" valign="top" | [http://wiki.na-mic.org/Wiki/index.php/File:LongitudinalLesionComparison2_TutorialContestSummer2010.zip Longitudinal Lesion Comparison Data]
 | style="background:#FFFFFF ; color:black" align="center"| [[File:Longitudinal_Lesion.png |250px]]

@@ Line 128: / Line 128: @@
 |  id="IAFEMesh" style="background:#FFFFFF ; color:blue; font-size:110%" align="center"|'''Specialized'''
 | style="background:#FFFFFF  color:black" valign="top"| [http://www.slicer.org/slicerWiki/images/1/13/IAFEMesh-TutorialContestSummer2010.pdf Meshing Workflow] <br><br> '''Audience:''' All users and developers. (Note: Mac and Linux only.)
-| style="background:#FFFFFF ; color:black" valign="top" | [http://www.slicer.org/slicerWiki/index.php/File:IAFEMeshData-TutorialContestSummer2010.zip Meshing Workflow Data]<br><br>
+| style="background:#FFFFFF ; color:black" valign="top" | [[File:IAFEMeshData-TutorialContestSummer2010.zip|Meshing Workflow Data]]<br><br>
 | style="background:#FFFFFF ; color:black" align="center"| [[File:FEMesh.png |250px]]
 |-
@@ Line 162: / Line 162: @@
 |-
 | id="PerkStationModule" style="background:#FFFFFF ; color:blue; font-size:110%" align="center"|'''Specialized'''
-| style="background:#FFFFFF ; color:black" valign="top"|[http://www.slicer.org/slicerWiki/index.php/File:PerkStationModule_TutorialContestSummer2010.pdf PERK Station Module] <br><br>'''Audience:''' All users and developers. (Note: Windows only.)
+| style="background:#FFFFFF ; color:black" valign="top"|[[File:PerkStationModule_TutorialContestSummer2010.pdf|PERK Station Module]] <br><br>'''Audience:''' All users and developers. (Note: Windows only.)
 | style="background:#FFFFFF ; color:black" valign="top" | [http://www.slicer.org/slicerWiki/images/3/36/PerkStationData_TutorialContestSummer2010.zip PERK Station Module]
 | style="background:#FFFFFF ; color:black" align="center"| [[File:PERKStation.png |250px]]

@@ Line 82: / Line 82: @@
 | id="OpenIGTLink" style="background:#FFFFCC; color:blue; font-size:110%" align="center"|  '''Specialized'''
 | style="background:#FFFFCC; color:black"  valign="top"|[[media:OpenIGTLinkTutorial_Slicer3.6.2_JunichiTokuda_Dec2010.pdf‎ | '''OpenIGTLink''']] <br><br> This tutorial shows to connect an IGT device using the OpenIGTLink.
-|style="background:#FFFFCC; color:black" valign="top" | [http://wiki.slicer.org/slicerWiki/index.php/Modules:OpenIGTLinkIF-3.6-Simulators'''OpenIGTLink Data Simulator''']
+|style="background:#FFFFCC; color:black" valign="top" | [[Modules:OpenIGTLinkIF-3.6-Simulators'''OpenIGTLink|Data Simulator''']]
 | style="background:#FFFFCC; color:black" align="center"| [[Image:OpenIGT.PNG|250px]]
 |-

@@ Line 67: / Line 67: @@
 | id="PETCTSUVTutorial" style="background:#FFFFCC; color:blue; font-size:110%" align="center"|  '''Specialized'''
 | style="background:#FFFFCC; color:black"  valign="top"| [http://www.na-mic.org/Wiki/index.php/File:PETCTTutorial.pptx  '''PET/CT SUV Tutorial'''] <br><br> This tutorial takes the trainee through the computation of SUV body weight on a baseline and followup study.
-| style="background:#FFFFCC; color:black" valign="top" | [http://wiki-na-mic.org/Wiki/images/7/73/PETCTFusion-Tutorial-Data.zip '''PET/CT Data ''']
+| style="background:#FFFFCC; color:black" valign="top" | [[media:PETCTFusion-TutorialData.zip| PETCTFusion]]
 | style="background:#FFFFCC; color:black" align="center"| [[Image:PETCTFusionBig.png|250px]]
 |-

← Older revision		Revision as of 21:09, 11 April 2012
Line 184:		Line 184:
	* [http://openpaleo.blogspot.com/2009/03/3d-slicer-tutorial-part-v.html Open Source Paleontologist: 3D Slicer: The Tutorial Part V]		* [http://openpaleo.blogspot.com/2009/03/3d-slicer-tutorial-part-v.html Open Source Paleontologist: 3D Slicer: The Tutorial Part V]
	* [http://openpaleo.blogspot.com/2009/03/3d-slicer-tutorial-part-vi.html Open Source Paleontologist: 3D Slicer: The Tutorial Part VI]		* [http://openpaleo.blogspot.com/2009/03/3d-slicer-tutorial-part-vi.html Open Source Paleontologist: 3D Slicer: The Tutorial Part VI]
		+
		+	Narrated screencast video showing how to load data and make models: http://www.youtube.com/watch?v=GNsWRnm7gQw&context=C42d9859ADvjVQa1PpcFPhXz87xj_xyVq19zSUexfAbEm8Iz3DYEk=

@@ Line 109: / Line 109: @@
 |-
 | id="Centerline Extraction of Coronary Arteries" style="background:#FFFFFF; color:blue; font-size:110%" align="center"|  '''Specialized'''
-| style="background:#FFFFFF; color:black"  valign="top"|[http://wiki.na-mic.org/Wiki/images/a/aa/VMTK_Slicer_3.6.3_Updated_OCT_2011.pdf‎  '''Centerline Extraction of Coronary Arteries using VMTK in 3D Slicer'''] <br><br> This  [http://wiki.na-mic.org/Wiki/images/a/aa/VMTK_Slicer_3.6.3_Updated_OCT_2011.pdf tutorial] guides the user step by step through the process of centerline extraction of Coronary Arteries in a cardiac blood-pool MRI using VMTK based Tools.
+| style="background:#FFFFFF; color:black"  valign="top"|[http://wiki.na-mic.org/Wiki/images/a/aa/VMTK_Slicer_3.6.3_Updated_OCT_2011.pdf '''Centerline Extraction of Coronary Arteries using VMTK in 3D Slicer'''] <br><br> This  [http://wiki.na-mic.org/Wiki/images/a/aa/VMTK_Slicer_3.6.3_Updated_OCT_2011.pdf tutorial] guides the user step by step through the process of centerline extraction of Coronary Arteries in a cardiac blood-pool MRI using VMTK based Tools.
 |style="background:#FFFFFF; color:black" valign="top" | [http://www.na-mic.org/Wiki/index.php/File:TutorialVMTKCoronariesCenterlinesMRI_Data_Winter2010AHM.zip Cardiac blood-pool MRI dataset]
 | style="background:#FFFFF; color:black" align="center"| [[Image:Vmtkcloseupvoronoicenterlinewithreference.png|250px]]

@@ Line 107: / Line 107: @@
 |style="background:#FFFFFF; color:black" valign="top" | [[media:TBISegmentation_data.zip‎| TBI segmentation dataset]]
 | style="background:#FFFFF; color:black" align="center"| [[Image:TBI_image.png|250px]]
 |-
 |}
 =Summer 2010 Tutorial Contest Entries =

@@ Line 92: / Line 92: @@
 |}
-=Summer 2011 Tutorial Contest Entries =
+=Summer 2011 Tutorial Contest Entries (under construction)=
 {| border="1" cellpadding="3" width="1000px"