Modules:ResampleDTIVolume-Documentation-3.6 - Revision history

Fbudin: /* When Using the module in command line */

2010-12-22T14:44:03Z

When Using the module in command line

2010-04-14T20:03:09Z

Examples, Use Cases & Tutorials

2010-04-05T14:34:28Z

Quick Tour of Features and Use

2010-04-05T14:23:39Z

Quick Tour of Features and Use

2010-04-05T14:11:24Z

Quick Tour of Features and Use

2010-04-05T14:10:12Z

Quick Tour of Features and Use

2010-04-05T14:07:17Z

When Using the module in command line

2010-04-05T14:06:54Z

Quick Tour of Features and Use

2010-04-01T21:48:10Z

Source code & documentation

2010-04-01T21:47:00Z

Source code & documentation

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 ===When Using the module in command line===
 * The Transform can be given through an ITK Transform file. An example is given below.
   #Insight Transform File V1.0

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 * The transform can be passed as an ITK Transform file using the command line, or directly as a transform node in Slicer3. In the latter case, the transform can only be rigid or affine.
 * It also allows changing the spacing, the orientation, the size and the origin of the image. In that case, the image will be modified in consequences.
 ===Quick Tour of Features and Use===

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 ** ''Centered Transform:'' sets the center of the transformation to the center of the image.
 ** ''Inverse ITK Transformation:'' inverses the transformation before applying it to the image. The transform given to the module is from the output image to the input one. If one wants to specify a transform from the input image to the output image, one should use this flag. This option can only be used if the transform is rigid or affine. Be careful: if the file containing the transform contains multiple transforms, only rigid and affine transforms will be inverted.
-* '''Affine Transformation Type:''' Use the Preservation of the Principal Direction (right image) to compute the affine transform. Otherwise, the Finite Strain Method (left image) is used [[#References|[1] ]].
+* '''Affine Transformation Type:''' Uses the Preservation of the Principal Direction (right image) to compute the affine transform. Otherwise, the Finite Strain Method (left image) is used [[#References|[1] ]].
 {|

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 * '''Transform Parameters:'''
 ** ''Transform Node'' contains the transform(s) to apply to the image
-** ''Transforms Order'' allows the user to tell the module in what order the transforms are stored in the node (or file).
+** ''Transforms Order'' allows the user to tell the module in what order the transforms are stored in the node (or file). Transforms should be backward (from output space to input space). However, in Slicer3, the affine and rigid transform nodes are stored as forward transforms and are inverted when passed to the module.
   Input Image <- Transform0 <- Transform1 <- ... <- Transform n <- Output Image (input-to-output)
   Input Image <- Transform n <- Transform n-1 <- ... <- Transform0 <- Output Image (output-to-input)

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 * '''Transform Parameters:'''
 ** ''Transform Node'' contains the transform(s) to apply to the image
-** ''Transforms Order'' allows the user to tell the module in what order the transforms are stored in the node.
+** ''Transforms Order'' allows the user to tell the module in what order the transforms are stored in the node (or file).
   Input Image <- Transform0 <- Transform1 <- ... <- Transform n <- Output Image (input-to-output)
   Input Image <- Transform n <- Transform n-1 <- ... <- Transform0 <- Output Image (output-to-input)

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 ** ''Transform Node'' contains the transform(s) to apply to the image
 ** ''Transforms Order'' allows the user to tell the module in what order the transforms are stored in the node.
-  Input Image -> Transform0 -> Transform1 -> ... -> Transform n -> Output Image (input-to-output)
+  Input Image <- Transform0 <- Transform1 <- ... <- Transform n <- Output Image (input-to-output)
-  Input Image -> Transform n -> Transform n-1 -> ... -> Transform0 -> Output Image (output-to-input)
+  Input Image <- Transform n <- Transform n-1 <- ... <- Transform0 <- Output Image (output-to-input)
 * '''Manual Transform:''' if no tranform is set in previous panel, one can enter his own transform
 ** ''Transform Matrix:'' a 12-parameter affine transformation manually. The first 9 numbers represent a linear transformation matrix in column-major order (where the column index varies the fastest), the last 3 are a translation.

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 ** The first 9 numbers represent a linear transformation matrix in column-major order (where the column index varies the fastest)
 ** The last 3 are a translation.
-* A transform file may contain multiple transforms. The transforms are all merged together before being applied to the image. Therefore the interpolation operation is performed only once per voxel which improves the quality of the output image compared to applying each transform separatly. The transforms are applied in the following order:
+* A transform file may contain multiple transforms. The transforms are all merged together before being applied to the image. Therefore the interpolation operation is performed only once per voxel which improves the quality of the output image compared to applying each transform separatly.
 ===Acknowledgment===

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 ===Source code & documentation===
-Source code ([http://viewvc.slicer.org/viewcvs.cgi/trunk/Applications/CLI/DiffusionApplications/ResampleDTI/ link])
+Source code: follow this [http://viewvc.slicer.org/viewcvs.cgi/trunk/Applications/CLI/DiffusionApplications/ResampleDTI/ link]
 Doxygen documentation: