NAMIC Wiki - User contributions [en]

CTK Transfer function widget

2010-06-28T23:01:40Z

Nicolas: /* Project */

__NOTOC__
<gallery>
Image:PW-MIT2010.png|[[2010_Summer_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
* Harvard Medical School: Nicolas Rannou, Arnaud Gelas
* Kitware: Julien Finet
* Isomics: Steve Pieper

==Project==

[[File:Piece_histo_gradient.png|600px|Piecewise, vertical gradient and histogram]]
[[File:qSlicerVolumesModule.png|350px|Integration in Slicer]]
<div style="margin: 10px;">
<div style="width: 30%; float: left; padding-right: 3%;">

<h3>Objective</h3>
* Enhance the [http://www.commontk.org/index.php/Documentation/ctkTransferFunctionWidget CTK Transfer Function Widgets]
* Improve design/structure of the widget
* Integrate it in [http://gofigure2.sourceforge.net/ GoFigure2] ( [http://sourceforge.net/apps/trac/gofigure2/wiki Wiki page] ) for multichannel images visualization
* Source code
CTK GIT: git@github.com:commontk/CTK.git

GoFigure2 SVN: https://gofigure2.svn.sourceforge.net/svnroot/gofigure2
* Datasets
[[File:Datasets.zip]]

</div>
<div style="width: 25%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* Discuss with Julien, Ron, Sean, Steve and Arnaud about the needs, structure, etc.
* Get the CTK color and piecewise transfer functions working
* The transfer functions background should be the image of interest's histogram
* Implement the color transfer function widget in GoFigure2 to visualize multichannel images

</div>
<div style="width: 25%; float: left;">

<h3>Progress</h3>
*NEW FEATURES
** Dragging points
*** Stop Mode
*** Switch Mode
*** Draw Mode
** Possibility to draw a Transfer Function "on the fly"
** Multiple points selection/deletion
** Current point highlighted
** Select all points
** Drag all selected points
** Histrogram as background (in Slicer)
*TO DO
** Fix some bugs
** Add more mouse interaction
** Zoom on ROI of the TF
** Multiple points selection by drawing ROI
** ...
** Any suggestion is welcome!

</div>
</div>

<div style="width: 97%; float: left;">

CTK Transfer function widget

2010-06-28T23:00:14Z

Nicolas: /* Project */

__NOTOC__
<gallery>
Image:PW-MIT2010.png|[[2010_Summer_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
* Harvard Medical School: Nicolas Rannou, Arnaud Gelas
* Kitware: Julien Finet
* Isomics: Steve Pieper

==Project==

[[File:Piece_histo_gradient.png|Drag all points]]
[[File:qSlicerVolumesModule.png|350px|Integration in Slicer]]
<div style="margin: 10px;">
<div style="width: 30%; float: left; padding-right: 3%;">

<h3>Objective</h3>
* Enhance the [http://www.commontk.org/index.php/Documentation/ctkTransferFunctionWidget CTK Transfer Function Widgets]
* Improve design/structure of the widget
* Integrate it in [http://gofigure2.sourceforge.net/ GoFigure2] ( [http://sourceforge.net/apps/trac/gofigure2/wiki Wiki page] ) for multichannel images visualization
* Source code
CTK GIT: git@github.com:commontk/CTK.git

GoFigure2 SVN: https://gofigure2.svn.sourceforge.net/svnroot/gofigure2
* Datasets
[[File:Datasets.zip]]

</div>
<div style="width: 25%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* Discuss with Julien, Ron, Sean, Steve and Arnaud about the needs, structure, etc.
* Get the CTK color and piecewise transfer functions working
* The transfer functions background should be the image of interest's histogram
* Implement the color transfer function widget in GoFigure2 to visualize multichannel images

</div>
<div style="width: 25%; float: left;">

<h3>Progress</h3>
*NEW FEATURES
** Dragging points
*** Stop Mode
*** Switch Mode
*** Draw Mode
** Possibility to draw a Transfer Function "on the fly"
** Multiple points selection/deletion
** Current point highlighted
** Select all points
** Drag all selected points
** Histrogram as background (in Slicer)
*TO DO
** Fix some bugs
** Add more mouse interaction
** Zoom on ROI of the TF
** Multiple points selection by drawing ROI
** ...
** Any suggestion is welcome!

</div>
</div>

<div style="width: 97%; float: left;">

File:Piece histo gradient.png

2010-06-28T22:59:26Z

Nicolas: CTK_TF_Example

CTK_TF_Example

CTK Transfer function widget

2010-06-25T14:24:08Z

Nicolas: /* Project */

__NOTOC__
<gallery>
Image:PW-MIT2010.png|[[2010_Summer_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
* Harvard Medical School: Nicolas Rannou, Arnaud Gelas
* Kitware: Julien Finet
* Isomics: Steve Pieper

==Project==

[[File:baseTF.png|350px|Basic TF with highlitghted point]] [[File:selectTF.png|350px|Select all points]] [[File:dragTF.png|350px|Drag all points]]

<div style="margin: 10px;">
<div style="width: 30%; float: left; padding-right: 3%;">

<h3>Objective</h3>
* Enhance the [http://www.commontk.org/index.php/Documentation/ctkTransferFunctionWidget CTK Transfer Function Widgets]
* Improve design/structure of the widget
* Integrate it in [http://gofigure2.sourceforge.net/ GoFigure2] ( [http://sourceforge.net/apps/trac/gofigure2/wiki Wiki page] ) for multichannel images visualization
* Source code
CTK GIT: git@github.com:commontk/CTK.git

GoFigure2 SVN: https://gofigure2.svn.sourceforge.net/svnroot/gofigure2
* Datasets
[[File:Datasets.zip]]

</div>
<div style="width: 25%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* Discuss with Julien, Ron, Sean, Steve and Arnaud about the needs, structure, etc.
* Get the CTK color and piecewise transfer functions working
* The transfer functions background should be the image of interest's histogram
* Implement the color transfer function widget in GoFigure2 to visualize multichannel images

</div>
<div style="width: 25%; float: left;">

<h3>Progress</h3>
*NEW FEATURES
** Dragging points
*** Stop Mode
*** Switch Mode
*** Draw Mode
** Possibility to draw a Transfer Function "on the fly"
** Multiple points selection/deletion
** Current point highlighted
** Select all points
** Drag all selected points
** Histrogram as background (in Slicer)
*TO DO
** Fix some bugs
** Add more mouse interaction
** Zoom on ROI of the TF
** Multiple points selection by drawing ROI
** ...
** Any suggestion is welcome!

</div>
</div>

<div style="width: 97%; float: left;">

CTK Transfer function widget

2010-06-25T12:31:46Z

Nicolas: /* Project */

__NOTOC__
<gallery>
Image:PW-MIT2010.png|[[2010_Summer_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
* Harvard Medical School: Nicolas Rannou, Arnaud Gelas
* Kitware: Julien Finet
* Isomics: Steve Pieper

==Project==

[[File:baseTF.png|350px|Basic TF with highlitghted point]] [[File:selectTF.png|350px|Select all points]] [[File:dragTF.png|350px|Drag all points]]

<div style="margin: 10px;">
<div style="width: 30%; float: left; padding-right: 3%;">

<h3>Objective</h3>
* Enhance the [http://www.commontk.org/index.php/Documentation/ctkTransferFunctionWidget CTK Transfer Function Widgets]
* Improve design/structure of the widget
* Integrate it in [http://gofigure2.sourceforge.net/ GoFigure2] ( [http://sourceforge.net/apps/trac/gofigure2/wiki Wiki page] ) for multichannel images visualization
* Source code
CTK GIT: git@github.com:commontk/CTK.git

GoFigure2 SVN: https://gofigure2.svn.sourceforge.net/svnroot/gofigure2
* Datasets
[[File:Datasets.zip]]

</div>
<div style="width: 25%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* Discuss with Julien, Ron, Sean, Steve and Arnaud about the needs, structure, etc.
* Get the CTK color and piecewise transfer functions working
* The transfer functions background should be the image of interest's histogram
* Implement the color transfer function widget in GoFigure2 to visualize multichannel images

</div>
<div style="width: 25%; float: left;">

<h3>Progress</h3>
*NEW FEATURES
** Dragging points
*** Stop Mode
*** Switch Mode
*** Draw Mode
** Possibility to draw a Transfer Function "on the fly"
** Multiple points selection/deletion
** Current point highlighted
** Select all points
** Drag all selected points
*TO DO
** Fix some bugs
** Add more mouse interaction
** Zoom on ROI of the TF
** Multiple points selection by drawing ROI
** ...
** Any suggestion is welcome!

</div>
</div>

<div style="width: 97%; float: left;">

CTK Transfer function widget

2010-06-25T05:20:06Z

Nicolas: /* Project */

__NOTOC__
<gallery>
Image:PW-MIT2010.png|[[2010_Summer_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
* Harvard Medical School: Nicolas Rannou, Arnaud Gelas
* Kitware: Julien Finet
* Isomics: Steve Pieper

==Project==

[[File:baseTF.png|350px|Basic TF with highlitghted point]] [[File:selectTF.png|350px|Select all points]] [[File:dragTF.png|350px|Drag all points]]

<div style="margin: 10px;">
<div style="width: 30%; float: left; padding-right: 3%;">

<h3>Objective</h3>
* Enhance the [http://www.commontk.org/index.php/Documentation/ctkTransferFunctionWidget CTK Transfer Function Widgets]
* Improve design/structure of the widget
* Integrate it in [http://gofigure2.sourceforge.net/ GoFigure2] ( [http://sourceforge.net/apps/trac/gofigure2/wiki Wiki page] ) for multichannel images visualization
* Source code
CTK GIT: git@github.com:commontk/CTK.git

GoFigure2 SVN: https://gofigure2.svn.sourceforge.net/svnroot/gofigure2
* Datasets
[[File:Datasets.zip]]

</div>
<div style="width: 25%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* Discuss with Julien, Ron, Sean, Steve and Arnaud about the needs, structure, etc.
* Get the CTK color and piecewise transfer functions working
* The transfer functions background should be the image of interest's histogram
* Implement the color transfer function widget in GoFigure2 to visualize multichannel images

</div>
<div style="width: 25%; float: left;">

<h3>Progress</h3>
*NEW FEATURES
** Dragging points
*** Stop Mode
*** Switch Mode
*** Draw Mode
** Possibility to draw a Transfer Function "on the fly"
** Multiple points selection/deletion
** Current point highlighted
** Select all points
** Drag all selected points
*TO DO
** Fix some bugs
** Add more mouse interaction
** Focus on ROI of the TF
** ...
** Any suggestion is welcome!

</div>
</div>

<div style="width: 97%; float: left;">

File:DragTF.png

2010-06-25T05:05:36Z

Nicolas: drag CTK TF to right

drag CTK TF to right

File:SelectTF.png

2010-06-25T05:05:17Z

Nicolas: all points selected in base CTK TF

all points selected in base CTK TF

File:BaseTF.png

2010-06-25T05:04:39Z

Nicolas: base CTK TF

base CTK TF

CTK Transfer function widget

2010-06-25T04:59:55Z

Nicolas: /* Project */

__NOTOC__
<gallery>
Image:PW-MIT2010.png|[[2010_Summer_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
* Harvard Medical School: Nicolas Rannou, Arnaud Gelas
* Kitware: Julien Finet
* Isomics: Steve Pieper

==Project==

[[File:CtkVTKPiecewiseFunction.png|400px]] [[File:Megasonlab multichannel.png|350px]]

<div style="margin: 10px;">
<div style="width: 50%; float: left; padding-right: 3%;">

<h3>Objective</h3>
* Enhance the [http://www.commontk.org/index.php/Documentation/ctkTransferFunctionWidget CTK Transfer Function Widgets]
* Improve design/structure of the widget
* Integrate it in [http://gofigure2.sourceforge.net/ GoFigure2] ( [http://sourceforge.net/apps/trac/gofigure2/wiki Wiki page] ) for multichannel images visualization
* Source code
CTK GIT: git@github.com:commontk/CTK.git

GoFigure2 SVN: https://gofigure2.svn.sourceforge.net/svnroot/gofigure2
* Datasets
[[File:Datasets.zip]]

</div>
<div style="width: 25%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* Discuss with Julien, Ron, Sean, Steve and Arnaud about the needs, structure, etc.
* Get the CTK color and piecewise transfer functions working
* The transfer functions background should be the image of interest's histogram
* Implement the color transfer function widget in GoFigure2 to visualize multichannel images

</div>
<div style="width: 18%; float: left;">

<h3>Progress</h3>
* New features
** Dragging points
*** Stop Mode
*** Switch Mode
*** Draw Mode
** Possibility to draw a Transfer Function "on the fly"
** Multiple points selection
** Delete selected points
** Current point highlighted
** Select all points
** Drag all selected points
* To do
** Fix some bugs
** Add more mouse interaction
** ...
** Any suggestion is welcome!
** Different dragging mo

</div>
</div>

<div style="width: 97%; float: left;">

2010 Summer Project Week Breakout Session: Volume Rendering

2010-06-18T17:31:37Z

Nicolas: /* Participants */

[[2010_Summer_Project_Week|Back to Project Week 2010]]

= Breakout session on Volume Rendering =
Goal of this session is to compare and contrast various volume rendering approaches in the context of clinical application scenarios. This will mainly be done through hands-on demos and group discussion.

* When: 3pm Thursday June 24
* Where: at a projector in the project week room.

Systems to examine:
* VTK GPU Raycasting in slicer 3.6 (GLSL)
* NCI GPU Raycasting in slicer 3.6 (GLSL)
* Microsoft research volume rendering demo (CUDA, closed source)
* Others?

Scenarios:
* Virtual Colonoscopy
* PET-CT
* Microscopy

== Preparation ==
Earlier in the project week we will work on getting the same datasets loaded on the various systems.

== Participants ==
Please add your name to the list if you are interested in participating in this session
# Steve Pieper, Isomics, Inc.
# Julien Finet, Kitware Inc.
# Alex Yarmarkovich, Isomics, Inc.
# Yanling Liu, SAIC-Frederick/NCI-Frederick.
# Jim Barabas, MIT Media Lab.
# Arnaud Gelas, Harvard Medical School
# Nicolas Rannou, Harvard Medical School

CTK Transfer function widget

2010-06-16T23:04:09Z

Nicolas: /* Project */

__NOTOC__
<gallery>
Image:PW-MIT2010.png|[[2010_Summer_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
* Harvard Medical School: Nicolas Rannou
* Kitware: Julien Finet
* Isomics: Steve Pieper

==Project==

[[File:CtkVTKPiecewiseFunction.png|400px]] [[File:Megasonlab multichannel.png|350px]]

<div style="margin: 10px;">
<div style="width: 50%; float: left; padding-right: 3%;">

<h3>Objective</h3>
* Enhance the [http://www.commontk.org/index.php/Documentation/ctkTransferFunctionWidget CTK Transfer Function Widgets]
* Improve design/structure of the widget
* Integrate it in [http://gofigure2.sourceforge.net/ GoFigure2] ( [http://sourceforge.net/apps/trac/gofigure2/wiki Wiki page] ) for multichannel images visualization
* Source code
CTK GIT: git@github.com:commontk/CTK.git

GoFigure2 SVN: https://gofigure2.svn.sourceforge.net/svnroot/gofigure2
* Datasets
[[File:Datasets.zip]]

</div>
<div style="width: 25%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* Discuss with Julien, Ron, Sean, Steve and Arnaud about the needs, structure, etc.
* Get the CTK color and piecewise transfer functions working
* The transfer functions background should be the image of interest's histogram
* Implement the color transfer function widget in GoFigure2 to visualize multichannel images

</div>
<div style="width: 18%; float: left;">

<h3>Progress</h3>

</div>
</div>

<div style="width: 97%; float: left;">

CTK Transfer function widget

2010-06-16T23:02:54Z

Nicolas: /* Project */

__NOTOC__
<gallery>
Image:PW-MIT2010.png|[[2010_Summer_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
* Harvard Medical School: Nicolas Rannou
* Kitware: Julien Finet
* Isomics: Steve Pieper

==Project==

[[File:CtkVTKPiecewiseFunction.png|400px]] [[File:Megasonlab multichannel.png|350px]]

<div style="margin: 10px;">
<div style="width: 50%; float: left; padding-right: 3%;">

<h3>Objective</h3>
* Enhance the [http://www.commontk.org/index.php/Documentation/ctkTransferFunctionWidget CTK Transfer Function Widgets]
* Improve design/structure of the widget
* Integrate it in [http://gofigure2.sourceforge.net/ GoFigure2] ( [http://sourceforge.net/apps/trac/gofigure2/wiki Wiki page] ) for multichannel images visualization
* Source code
CTK GIT: git@github.com:commontk/CTK.git

GoFigure2 SVN: https://gofigure2.svn.sourceforge.net/svnroot/gofigure2
* Datasets
[[File:Datasets.zip]]

</div>
<div style="width: 25%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* Discuss with Ron, Sean, Steve, Julien and Arnaud about the needs, structure, etc.
* Get the CTK color and piecewise transfer functions working
* The transfer functions background should be the image of interest's histogram
* Implement the color transfer function widget in GoFigure2 to visualize multichannel images

</div>
<div style="width: 18%; float: left;">

<h3>Progress</h3>

</div>
</div>

<div style="width: 97%; float: left;">