2008 Winter Project Week:Resampling DTIs with Slicer3 - Revision history

Budin: /* Jan 2008 Project Week */

2008-02-14T22:21:03Z

Jan 2008 Project Week

Budin: /* Jan 2008 Project Week */

2008-02-14T22:20:11Z

Jan 2008 Project Week

Budin: /* References */

2008-02-14T22:18:51Z

References

Budin at 22:09, 14 February 2008

2008-02-14T22:09:22Z

Budin at 22:05, 14 February 2008

2008-02-14T22:05:56Z

Taox: /* Key Investigators */

2008-01-03T20:25:50Z

Key Investigators

Budin: New page: {| |Return to [[2008_Winter_Project_Week ]] |} NOTOC ===Key Investigators=== * BWH: Francois Budin, Sylvain Bouix

2007-12-19T17:05:47Z

New page: {| |thumb|320px|Return to [[2008_Winter_Project_Week ]] |} NOTOC ===Key Investigators=== * BWH: Francois Budin, Sylvain Bouix <div style="margin: 20px;"> <di...

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|[[Image:NAMIC-SLC.jpg|thumb|320px|Return to [[2008_Winter_Project_Week]] ]]
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NOTOC
===Key Investigators===
* BWH: Francois Budin, Sylvain Bouix

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<h1>Objective</h1>
The goal of this project is to develop a command line module for slicer 3 to resample DT images. This module will be compatible with several ITK 3D transforms (rigid, affine and non-rigid) and implements different diffusion tensor interpolations.

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<div style="width: 27%; float: left; padding-right: 3%;">

<h1>Approach, Plan </h1>
Our approach is to build the ITK infrastructure (ITK diffusion tensor interpolators and ITK diffusion tensor transforms) to support this module. Our main purpose at the Project Week is to implement a non-rigid transform for diffusion tensor images.
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<h1>Progress</h1>

The module currently supports:
*Several blockwise diffusion tensor interpolations
Nearest Neighborhood
Linear
**BSpline
*Some Transforms
Rigid3D
Affine - Finite Strain
**Affine - Preservation of Principal Direction
To implement:
non-rigid transforms
better interpolations
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===References===
* D.C. Alexander, C. Pierpaoli, P.J. Basser, J.C. Gee. Spatial Transformations of Diffusion Tensor Magnetic Resonance Images, IEEE Transactions on medical imaging, vol. 20, No. 11, November 2001

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 *Linear
 *BSpline
 The next step is to implement new interpolations (ie separating the shape and the orientation of the tensors).

@@ Line 31: / Line 31: @@
 ====Jan 2008 Project Week====
-The project week allowed to integrate the module into Slicer. It is now available in Slicer3 TransformIO branch. The support of the non-rigid transforms has been added. The list of the currently supported transforms is the following:
+The project week allowed to integrate the module into Slicer3. It is now available in Slicer3 TransformIO branch. The support of the non-rigid transforms has been added. The list of the currently supported transforms is the following:
 *Rigid3D
 *Affine - Finite Strain
@@ Line 49: / Line 49: @@
 </div>
 ===References===
 * D.C. Alexander, C. Pierpaoli, P.J. Basser, J.C. Gee. Spatial Transformations of Diffusion Tensor Magnetic Resonance Images, IEEE Transactions on medical imaging, vol. 20, No. 11, November 2001

@@ Line 29: / Line 29: @@
 <h1>Progress</h1>
-The module is available in Slicer3 TransformIO branch. It currently supports:
+====Jan 2008 Project Week====
-*Several blockwise diffusion tensor interpolations
-**Nearest Neighborhood
+The project week allowed to integrate the module into Slicer. It is now available in Slicer3 TransformIO branch. The support of the non-rigid transforms has been added. The list of the currently supported transforms is the following:
-**Linear
+*Rigid3D
-**BSpline
+*Affine - Finite Strain
-*The following transforms
+*Affine - Preservation of Principal Direction
-**Rigid3D
+*Non-rigid transforms (not tested yet)
-**Affine - Finite Strain
-**Affine - Preservation of Principal Direction
+Several blockwise diffusion tensor interpolations are also available:
-**non-rigid transforms (not tested yet)
+*Nearest Neighborhood
-To implement:
+*Linear
-* new interpolations ( using the separation of the shape and the orientation of the tensors)
+*BSpline
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 {|
 |[[Image:NAMIC-SLC.jpg|thumb|320px|Return to [[2008_Winter_Project_Week]] ]]
-|[[Image:Original_tensor_ellipsoid.png|thumb|320px ]]
+|[[Image:Original_tensor_ellipsoid.png|thumb|320px |Tensor Phantom ]]
-|[[Image:scaled_tensor_ellipsoid.png|thumb|320px ]]
+|[[Image:scaled_tensor_ellipsoid.png|thumb|320px |Tensor Phantom after scaling transformation]]
 |}

@@ Line 1: / Line 1: @@
 {|
 |[[Image:NAMIC-SLC.jpg|thumb|320px|Return to [[2008_Winter_Project_Week]] ]]
 |}
@@ Line 13: / Line 15: @@
 <h1>Objective</h1>
-The goal of this project is to develop a command line module for slicer 3 to resample DT images. This module will be compatible with several ITK 3D transforms (rigid, affine and non-rigid) and implements different diffusion tensor interpolations.
+The goal of this project is to develop a command line module for slicer 3 to resample DT images. This module is compatible with several ITK 3D transforms (rigid, affine and non-rigid). These transforms can be pass as an ITKTransformFile using the command line, or directly as a transform in Slicer3. It also allows change the spacing, the orientation, the size or the origin of the image. This module implements different diffusion tensor interpolations and the structure of the program makes it easy to add new interpolations or new transformations.
 </div>
@@ Line 20: / Line 22: @@
 <h1>Approach, Plan </h1>
-Our approach is to build the ITK infrastructure (ITK diffusion tensor interpolators and ITK diffusion tensor transforms) to support this module.  Our main purpose at the Project Week is to implement a non-rigid transform for diffusion tensor images.
+Our approach is to build the ITK infrastructure (ITK diffusion tensor interpolators and ITK diffusion tensor transforms) to support this module. Our main purpose at the Project Week is to implement a non-rigid transform for diffusion tensor images.
 </div>
@@ Line 27: / Line 29: @@
 <h1>Progress</h1>
-The module currently supports:
+The module is available in Slicer3 TransformIO branch. It currently supports:
 *Several blockwise diffusion tensor interpolations
 **Nearest Neighborhood
 **Linear
 **BSpline
-*Some Transforms
+*The following transforms
 **Rigid3D
 **Affine - Finite Strain
 **Affine - Preservation of Principal Direction
 To implement:
-*non-rigid transforms
+* new interpolations ( using the separation of the shape and the orientation of the tensors)
-*better interpolations
 </div>

@@ Line 6: / Line 6: @@
 ===Key Investigators===
 * BWH: Francois Budin, Sylvain Bouix
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