Nicole: /* Tests */

2010-04-29T15:04:13Z

Tests

Nicole: Created page with 'Return to Slicer 3.6 Documentation Gallery of New Features NOTOC ===ACPC Transform=== ACPC Transform {| |[[Ima…'

2010-03-26T23:01:26Z

Created page with 'Return to Slicer 3.6 Documentation Gallery of New Features __NOTOC__ ===ACPC Transform=== ACPC Transform {| |[[Ima…'

New page

[[Documentation-3.6|Return to Slicer 3.6 Documentation]]

[[Announcements:Slicer3.6#Highlights|Gallery of New Features]]

__NOTOC__
===ACPC Transform===
ACPC Transform

{|
|[[Image:SlicerACPCTransformGUI-3.4.jpg|thumb|280px|GUI]]
|[[Image:SlicerACPCTransformAfter-3.4.jpg|thumb|280px|After calculating the transform]]
|}

== General Information ==
===Module Type & Category===

Type: CLI

Category: Registration

===Authors, Collaborators & Contact===
* Nicole Aucoin: Brigham and Women's Hospital
* Contact: Nicole Aucoin, nicole@bwh.harvard.edu

===Module Description===

Calculate a transformation from two input fiducial lists.

This transformation can then be applied to a volume using the Resample Scalar/Vector/DWI Volume module.

Note: renamed from RealignVolume.

== Usage ==

===Use Cases, Examples===

This module is especially appropriate for these use cases:

* Use Case 1: place fiducials in two orthogonal lines in a an image to define the midline and the ACPC line
* Use Case 2:

Examples of the module in use:

* Example 1
* Example 2

===Tutorials===

Links to tutorials explaining how to use this module:

* Tutorial 1
** Data Set 1

===Quick Tour of Features and Use===

* '''Transform panel:''' Calculate a transform from midline and ACPC fiducial lists, and specify an output transform.
**ACPC Line: a fidicual list containing two fiducial points, one at the anterior commissure and one at the posterior commissure. The resulting transform will bring the line connecting them to horizontal to the AP axis.
**Midline: pick a fiducial list from the scene that defines the midline. The midline is a series of points defining the division between the left and right hemispheres of the brain (the mid sagittal plane). The resulting transform will put the output volume with the mid sagittal plane lined up with the AS plane.
**Output transform: An output transform - load the calculated transform in this node.
* '''Debug panel:''' Set debugging flag
** Debug: click to see print outs

*Use: the order in which the acpc fiducials are picked is not important.

== Development ==

===Notes from the Developer(s)===

Ported from Slicer 2.6.

===Dependencies===

The fiducials module is required for this module's use.
The Resample Scalar/Vector/DWI Volume module can be used to apply the transform once it has been calculated.

===Tests===

On the [http://www.cdash.org/CDash/index.php?project=Slicer3 Dashboard], these tests verify that the module is working on various platforms:

* MyModuleTest1 [http://viewvc.slicer.org/viewcvs.cgi/trunk MyModuleTest1.cxx]
* MyModuleTest2 [http://viewvc.slicer.org/viewcvs.cgi/trunk MyModuleTest2.cxx]

===Known bugs===

Follow this [http://na-mic.org/Mantis/main_page.php link] to the Slicer3 bug tracker.

===Usability issues===

Follow this [http://na-mic.org/Mantis/main_page.php link] to the Slicer3 bug tracker. Please select the '''usability issue category''' when browsing or contributing.

===Source code & documentation===

Source Code:
*[http://viewvc.slicer.org/viewcvs.cgi/trunk/Applications/CLI/Realign/Realign.xml Realign.xml]
*[http://viewvc.slicer.org/viewcvs.cgi/trunk/Applications/CLI/Realign/Realign.cxx Realign.cxx]
*[http://viewvc.slicer.org/viewcvs.cgi/trunk/Applications/CLI/Realign/vtkPrincipalAxesAlign.cxx vtkPrincipalAxesAlign.cxx], [http://viewvc.slicer.org/viewcvs.cgi/trunk/Applications/CLI/Realign/vtkPrincipalAxesAlign.h vtkPrincipalAxesAlign.h]

Doxygen documentation:
* [http://www.na-mic.org/Slicer/Documentation/Slicer3-doc/html/classvtkPrincipalAxesAlign.html vtkPrincipalAxesAlign].

== More Information ==

===Acknowledgment===
This work is part of the National Alliance for Medical Image Computing (NAMIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149.

===References===

@@ Line 78: / Line 78: @@
 On the [http://www.cdash.org/CDash/index.php?project=Slicer3 Dashboard], these tests verify that the module is working on various platforms:
-* MyModuleTest1 [http://viewvc.slicer.org/viewcvs.cgi/trunk MyModuleTest1.cxx]
+* ACPCTest [http://viewvc.slicer.org/viewcvs.cgi/trunk/Applications/CLI/Testing/ACPCTest.cxx ACPCTest.cxx]
 ===Known bugs===

Modules:ACPCTransform-Documentation-3.6 - Revision history

Nicole: /* Tests */

Nicole: Created page with 'Return to Slicer 3.6 Documentation Gallery of New Features __NOTOC__ ===ACPC Transform=== ACPC Transform {| |[[Ima…'

Nicole: Created page with 'Return to Slicer 3.6 Documentation Gallery of New Features NOTOC ===ACPC Transform=== ACPC Transform {| |[[Ima…'