Documentation/4.0/Modules/ChangeTracker - Revision history

UpdateBot: Prepend documentation/versioncheck template. See http://na-mic.org/Mantis/view.php?id=2887

2013-06-14T07:36:18Z

Prepend documentation/versioncheck template. See http://na-mic.org/Mantis/view.php?id=2887

JChris.FillionR at 11:52, 2 February 2012

2012-02-02T11:52:07Z

JChris.FillionR at 09:58, 2 February 2012

2012-02-02T09:58:08Z

Finetjul: Use template for logos

2012-01-30T20:50:32Z

Use template for logos

JChris.FillionR at 22:13, 25 January 2012

2012-01-25T22:13:36Z

JChris.FillionR at 22:05, 25 January 2012

2012-01-25T22:05:11Z

Fedorov at 03:06, 24 November 2011

2011-11-24T03:06:15Z

Fedorov at 01:47, 24 November 2011

2011-11-24T01:47:46Z

Fedorov at 04:32, 22 November 2011

2011-11-22T04:32:45Z

Fedorov at 04:15, 22 November 2011

2011-11-22T04:15:51Z

← Older revision		Revision as of 07:36, 14 June 2013
Line 1:		Line 1:
		+	<noinclude>{{documentation/versioncheck}}</noinclude>
	<!-- ---------------------------- -->		<!-- ---------------------------- -->
	{{documentation/{{documentation/version}}/module-header}}		{{documentation/{{documentation/version}}/module-header}}

@@ Line 46: / Line 46: @@
 <!-- ---------------------------- -->
 {{documentation/{{documentation/version}}/module-section|Tutorials}}
 The test data can be downloaded automatically by pushing the "Load test data" in the panel of the first step (you will need the internet connection).
@@ Line 114: / Line 113: @@
 <!-- ---------------------------- -->
 {{documentation/{{documentation/version}}/module-section|Similar Modules}}
-* Point to other modules that have similar functionality
+N/A
 <!-- ---------------------------- -->

@@ Line 123: / Line 123: @@
 <!-- ---------------------------- -->
 {{documentation/{{documentation/version}}/module-section|Information for Developers}}
-{{documentation/{{documentation/version}}/module-developerinfo|ModuleTemplate|type=Interactive|category=Wizards}}
+{{documentation/{{documentation/version}}/module-developerinfo}}
 <!-- ---------------------------- -->
-{{documentation/{{documentation/version}}/module-footer|category=Wizards}}
+{{documentation/{{documentation/version}}/module-footer}}
 <!-- ---------------------------- -->

@@ Line 12: / Line 12: @@
 {{documentation/{{documentation/version}}/module-introduction-row}}
 {{documentation/{{documentation/version}}/module-introduction-logo-gallery
-|{{collaborator|logo|namic}}|NA-MIC
+|{{collaborator|logo|namic}}|{{collaborator|longname|namic}}
-|{{collaborator|logo|bsf}}|Brain Science Foundation
+|{{collaborator|logo|bsf}}|{{collaborator|longname|bsf}}
-|{{collaborator|logo|ncigt}}|NCIGT
+|{{collaborator|logo|ncigt}}|{{collaborator|longname|ncigt}}
-|{{collaborator|logo|spl}}|SPL
+|{{collaborator|logo|spl}}|{{collaborator|longname|spl}}
 }}
 {{documentation/{{documentation/version}}/module-introduction-end}}

← Older revision		Revision as of 22:13, 25 January 2012
Line 18:		Line 18:
	}}		}}
	{{documentation/{{documentation/version}}/module-introduction-end}}		{{documentation/{{documentation/version}}/module-introduction-end}}
−
−	~~<!-- ----------------------------------------------------------------- -->~~
−	~~<!-- THE FOLLOWING SHOULD BE REMOVED FOR YOUR OWN MODULE DOCUMENTATION -->~~
−	~~<!-- ----------------------------------------------------------------- -->~~

@@ Line 96: / Line 96: @@
 {|
-|We provide two metrics to quantify tumor progression: intensity-based and deformation-based (see details in this [http://www.spl.harvard.edu/pages/Special:PubDB_View?dspaceid=1430 paper]). Choose the metric(s) you would like to use.
+|Choose the metric(s) you would like to use. ChangeTracker provides an extensible framework for developing and incorporating change quantification metrics into the workflow (see Information for Developers section). The metrics currently available are the following (follow the links for details and documentation):
-In some cases, the automatic registration functionality in ChangeTracker may not be able to accurately register your data. If this happens, you can use the '''Advanced''' tab to register your data, and place Scan2 under the transform. ChangeTracker will use the prescribed transform and will skip registration step.
+In some cases, the registration procedure that ChangeTracker is using may not be robust enough to align your data. If this happens and the baseline and followup ROIs are not aligned after this step, you can use the '''Advanced''' tab to register your data, and place followup volume under the transform. ChangeTracker will use the prescribed transform and will skip registration step.
 |[[Image:Slicer4_ChangeTracker_Step4.png|thumb|450px|Step 4: ROI Analysis]]
@@ Line 123: / Line 124: @@
 <!-- ---------------------------- -->
 {{documentation/{{documentation/version}}/module-section|References}}
-Publications related to this module go here. Links to pdfs would be useful.
+* Konukoglu, E., Wells, W. M., Novellas, S., Ayache, N., Kikinis, R., Black, P. M., & Pohl, K. M. (2008). Monitoring slowly evolving tumors. 2008 5th IEEE International Symposium on Biomedical Imaging: From Nano to Macro (pp. 812-815). IEEE. doi:10.1109/ISBI.2008.4541120 [http://www.spl.harvard.edu/publications/item/view/1958 URL]
-For extensions: link to the source code repository and additional documentation
+* Pohl, K. M., Konukoglu, E., Novellas, S., Ayache, N., Fedorov, A., Talos, I.-F., Golby, A., et al. (2011). A new metric for detecting change in slowly evolving brain tumors: validation in meningioma patients. Neurosurgery, 68(1 Suppl Operative), 225-33. doi:10.1227/NEU.0b013e31820783d5 [http://www.spl.harvard.edu/publications/item/view/1958 URL]
 <!-- ---------------------------- -->
 {{documentation/{{documentation/version}}/module-section|Information for Developers}}
-{{documentation/{{documentation/version}}/module-developerinfo|ModuleTemplate|type=Interactive|category=Base}}
+{{documentation/{{documentation/version}}/module-developerinfo|ModuleTemplate|type=Interactive|category=Wizards}}
 <!-- ---------------------------- -->
-{{documentation/{{documentation/version}}/module-footer|category=Example}}
+{{documentation/{{documentation/version}}/module-footer|category=Wizards}}
 <!-- ---------------------------- -->

@@ Line 9: / Line 9: @@
 {{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}
 {{documentation/{{documentation/version}}/module-introduction-row}}
-This work is supported by NA-MIC, NAC, NCIGT, and the Slicer Community. This work is partially supported by NIH U01 CA151261<br>
+This work is supported by NA-MIC, NAC, NCIGT, and the Slicer Community. This work is partially supported by Brain Science Foundation and NIH U01 CA151261.<br>
 Author: Andrey Fedorov, Kilian Pohl, Peter Black, Ron Kikinis, SPL <br>
 Contact: Andrey Fedorov <email>fedorov@bwh.harvard.edu</email> <br>

@@ Line 28: / Line 28: @@
 <!-- ---------------------------- -->
 {{documentation/{{documentation/version}}/module-section|Module Description}}
 ChangeTracker is a software tool for quantification of the subtle changes in pathology. The module provides a workflow pipeline that combines user input with the medical data. As a result we provide quantitative volumetric measurements of growth/shrinkage together with the volume rendering of the tumor and color-coded visualization of the tumor growth/shrinkage.
@@ Line 37: / Line 40: @@
 If you want to apply ChangeTracker on non-meningioma data, please let us know. The algorithm is likely to require tuning of the parameters for registration and other processing steps.
 <!-- ---------------------------- -->