Modules:BRAINSDemonWarp - Revision history

Grundlett: Text replacement - "https?:\/\/(?:www|wiki)\.slicer\.org\/slicerWiki\/index\.php\/([^ ]+) " to "https://www.slicer.org/wiki/$1 "

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Text replacement - "https?:\/\/(?:www|wiki)\.slicer\.org\/slicerWiki\/index\.php\/([^ ]+) " to "https://www.slicer.org/wiki/$1 "

Mscully: /* References */

2010-12-02T23:04:06Z

References

Mscully: /* References */ Added insight journal paper ref

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References: Added insight journal paper ref

Hjmjohnson at 02:57, 5 June 2010

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Hjmjohnson: /* Acknowledgment */

2010-06-04T23:48:49Z

Acknowledgment

Hjmjohnson at 23:48, 4 June 2010

2010-06-04T23:48:06Z

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Hjmjohnson at 22:07, 4 June 2010

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KentWilliams at 16:16, 6 May 2010

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 |-
-|Program documentation-url || http://wiki.slicer.org/slicerWiki/index.php/Modules:BRAINSDemonWarp
+|Program documentation-url || https://www.slicer.org/wiki/Modules:BRAINSDemonWarp |-
 |}

← Older revision		Revision as of 23:04, 2 December 2010
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	===References===		===References===
−	* [http://hdl.handle.net/1926/1517 BRAINSDemonWarp: An Applicaton to Perform Demons Registration], Johnson H., Zhao Y., Insight Journal, 2009	+	* [http://hdl.handle.net/1926/1517 BRAINSDemonWarp: An Applicaton to Perform Demons Registration], Johnson H., Zhao Y., Insight Journal, 2009.

← Older revision		Revision as of 23:01, 2 December 2010
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	===References===		===References===
−	~~Publications related~~ to ~~this module go here~~. ~~Links to pdfs would be useful~~.	+	* [http://hdl.handle.net/1926/1517 BRAINSDemonWarp: An Applicaton to Perform Demons Registration], Johnson H., Zhao Y., Insight Journal, 2009

@@ Line 109: / Line 109: @@
 ===Tests===
+http://testing.psychiatry.uiowa.edu/CDash
 ===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.
 == More Information ==

@@ Line 139: / Line 139: @@
 ===Acknowledgment===
-Include funding and other support here.
+The development of this tool was supported by funding from grants NS050568 and NS40068 from the National Institute of Neurological Disorders and Stroke and grants MH31593, MH40856, from the National Institute of Mental Health.
 ===References===
 Publications related to this module go here. Links to pdfs would be useful.

@@ Line 14: / Line 14: @@
 ===Module Type & Category===
-Type: Interactive
+Type: CLI
 Category: Registration
 ===Authors, Collaborators & Contact===
-* Original Author: Tom Vercauteren : Institut National de Recherche En Informatique Et En Automatique
-* Contributor: Gregory Harris : University of Iowa
+Author: This tool was developed by Hans Johnson and Greg Harris.
-* Contributor: Hans J. Johnson : University of Iowa
-* Contributor: Kent WIlliams : University of Iowa
+Contributors:
-* Contact: Hans J. Johnson hans-johnson@uiowa.edu
 ===Module Description===
-BRAINSDemonWarp is a command line program for image registration by using different methods including Thirion and diffeomorphic demons algorithms.
 == Usage ==
-The module requires a template image and a target image and registers the template (moving) image onto the target (fixed) image. The resultant deformation fields and metric values can be written to a file. The program uses the Insight Toolkit (www.ITK.org) for all the computations, and can operate on any of the image file types supported by that library.
+The module registers the template (moving) image onto the physical space of the target (fixed) image. The resultant deformation fields and metric values can be written to a file. The program uses the Insight Toolkit (www.ITK.org) for all the computations, and can operate on any of the image file types supported by that library.
 ===Use Cases, Examples===
 The inputs to the BrainDemonsWarp program are the target image, the template image and the optional parameters. These parameters define the arguments for histogram matching and multi resolution registration. The outputs are the deformation field, output image, checkerboard image of the output and the fixed image and the x,y,z displacement vectors. If we specify debug option we can get the outputs at different stages. The filter is templated over the input image type, real image type and the output image types. We implement the algorithm by parsing the input, preprocessing them and registering the processed images.
@@ Line 37: / Line 54: @@
 ===Quick Tour of Features and Use===
 == Development ==

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 Source code:
-*[http://viewvc.slicer.org/viewcvs.cgi/trunk/Applications/CLI/BRAINSTools/BRAINSDemonWarp/]
+[http://viewvc.slicer.org/viewcvs.cgi/trunk/Applications/CLI/BRAINSTools/BRAINSDemonWarp/ BRAINSDemonWarp]
 Doxygen documentation:

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 {|
+|
-* '''Input panel:'''
+* '''Input Image Files'''
-** '''First input'''
+** '''Moving Image Volume -- image to register'''
-** '''Second input'''
+** '''Fixed Image Volume -- target for registration'''
-* '''Parameters panel:'''
+* '''Output Files'''
-** '''First parameter'''
+** '''Output Image Volume -- transformed moving volume'''
-** '''Second parameter'''
+** '''Output Deformation Field Volume -- each voxel is a vector defining translation of voxels from the moving image to fixed image space'''
 * '''Output panel:'''
 ** '''First output'''