Documentation:Nightly:Registration:RegistrationLibrary:RegLib C48 - Revision history

Meier: /* Procedure */

2014-08-29T21:52:20Z

Procedure

2014-08-29T21:47:47Z

Procedure

2014-08-29T21:39:05Z

Procedure

2014-08-29T21:27:26Z

Video Screencasts

2014-08-29T21:22:49Z

Video Screencasts

2014-08-29T21:21:12Z

Procedure

2013-09-18T16:36:30Z

Undo revision 35756 by Meier (Talk)

2013-09-18T16:34:15Z

2013-09-16T20:20:49Z

Procedure

2013-09-16T20:00:14Z

Download (from NAMIC MIDAS)

@@ Line 70: / Line 70: @@
 ##click apply. This will calculate a new transform with the updated fiducial list and replace the existing transform. You should see the difference immediately as the views update. You can use this to test if a registration can be improved by leaving out indiv. landmarks.
 #Alternative tool: '''Fiducial Registration within the SlicerIGT Extension''': the SlicerIGT extension also contains a landmark registration tool that offers rigid and similarity registration based on fiducial lists [[Media:RegLib_C48_FiducialRegistration_IGT.mov|'''(screencast on downloading and running the SlicerIGT extension)''']]
-##Downloading the SlicerIGT extension:
+##Downloading the [[Documentation/Nightly/Extensions/SlicerIGT|SlicerIGT]] extension:
-###click on the extension manager icon in the toolbar
+###click on the extension manager icon in the toolbar  [[Documentation/Nightly/SlicerApplication/ExtensionsManager|for details on the extension manager see here]]
 ###scroll down and locate the ''SlicerIGT'' icon, click on ''Install''.
 ###once the module is loaded, save any unsaved work, then click on the ''Restart'' button to restart Slicer.

@@ Line 69: / Line 69: @@
 ##return to the [[Documentation/Nightly/Modules/Fiducial Registration ''Fiducial Registration'' module]] (menu: ''Registration / Specialized'') and rerun the registration, choosing the same transform result name.
 ##click apply. This will calculate a new transform with the updated fiducial list and replace the existing transform. You should see the difference immediately as the views update. You can use this to test if a registration can be improved by leaving out indiv. landmarks.
-#Alternative tool: '''Fiducial Registration within the SlicerIGT Extension''':
+#Alternative tool: '''Fiducial Registration within the SlicerIGT Extension''': the SlicerIGT extension also contains a landmark registration tool that offers rigid and similarity registration based on fiducial lists [[Media:RegLib_C48_FiducialRegistration_IGT.mov|'''(screencast on downloading and running the SlicerIGT extension)''']]
 ##Downloading the SlicerIGT extension:
 ###click on the extension manager icon in the toolbar

@@ Line 70: / Line 70: @@
 ##click apply. This will calculate a new transform with the updated fiducial list and replace the existing transform. You should see the difference immediately as the views update. You can use this to test if a registration can be improved by leaving out indiv. landmarks.
 #Alternative tool: '''Fiducial Registration within the SlicerIGT Extension''':
-##the SlicerIGT extension also contains a landmark registration tool that offers rigid and similarity registration based on fiducial lists:
+##the SlicerIGT extension also contains a landmark registration tool that offers rigid and similarity registration based on fiducial lists [[Media:RegLib_C48_FiducialRegistration_IGT.mov|(screencast on downloading and running the SlicerIGT extension)]]
-##
+##Downloading the SlicerIGT extension:
 ==Registration Results==

@@ Line 30: / Line 30: @@
 == Video Screencasts ==
 #[[Media:RegLib_C48_FiducialRegistration.mov|'''fiducial-based registration''']]
-#[[Media:RegLib_C48_FiducialRegistration_IGT.mov|'''alternative tool. using SlicerIGT's fiducial-based registration''']] (for landmark selection see movie above)
+#[[Media:RegLib_C48_FiducialRegistration_IGT.mov|'''alternative tool: using SlicerIGT's fiducial-based registration''']] (shows extension download and module execution only, for the landmark selection see movie above)
 == Procedure ==

@@ Line 30: / Line 30: @@
 == Video Screencasts ==
 #[[Media:RegLib_C48_FiducialRegistration.mov|'''fiducial-based registration''']]
 == Procedure ==

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 [[Documentation/Nightly/Registration/RegistrationLibrary|Back to Registration Library]] <br>
-=  Slicer Registration Library Case #49: Pediatric Brain DTI =
+=  Slicer Registration Library Case #48: Fiducial Registration of Abdominal MR/CT =
 == Input ==
 {| style="color:#bbbbbb; " cellpadding="10" cellspacing="0" border="0"

@@ Line 32: / Line 32: @@
 == Procedure ==
-#'''Create CT fiducial list Compute Initial Registration''': see also movie above (1.manual initial alignment
+#'''Create CT fiducial list:''': see also movie above
 ##load the two datasets. Adjust brightness & contrast if necessary. Place the CT scan in the background and center the views.
 ##Open the [[Documentation/Nightly/Modules/Markups|''Markups'' module]]
@@ Line 43: / Line 43: @@
 ##open the ''Advanced'' tab and change the colors for this list (both selected and unselected). This will help you keep the two lists apart, i.e. distingush the CT list from the MR list
 ##switch the MR image into the backrgound and recenter the views.
 ##''List'': create and rename new list. Name to "fiducials_MRI" or similar
 ##repeat the selection of fiducials as above.
 ##in the ''Advanced'' tab, you can reshuffle the order of fiducials in the list. '''Important: remember that the fiducials in the two lists must be in the same order, i.e. the same anatomical loci must appear in both lists in the same order. If not you can use the shuffle buttons in the Advanced tab to rearrange.
 ##Save both lists. This will create ".csv" with fiducial names and coordinates
 ##go to the [[Documentation/Nightly/Modules/Fiducial Registration ''Fiducial Registration'' module]] (menu: ''Registration / Specialized'')
 ##''Fixed Landmarks'': select "Fiducials_CT"

@@ Line 22: / Line 22: @@
 == Download (from NAMIC MIDAS) ==
 <small>''Why 2 sets of files?  The "input data" mrb includes only the unregistered data to try the method yourself from start to finish. The full dataset includes intermediate files and results (transforms, resampled images etc.). If you use the full dataset we recommend to choose different names for the images/results you create yourself to distinguish the old data from the new one you generated yourself. ''</small>
-*[http://slicer.kitware.com/midas3/download/?items=xx '''RegLib_C48.mrb''': input data only, use this to run the tutorial from the start <small>(Slicer mrb file. 10 MB). </small>]
+*[http://slicer.kitware.com/midas3/download/?items=118088 '''RegLib_C48.mrb''': input data only, use this to run the tutorial from the start <small>(Slicer mrb file. 10 MB). </small>]
-*[http://slicer.kitware.com/midas3/download/?items=xx '''RegLib_C48_full.mrb''': includes raw data + all solutions and intermediate files, use to browse/verify <small>(Slicer mrb file. 12 MB). </small>]
+*[http://slicer.kitware.com/midas3/download/?items=118087 '''RegLib_C48_full.mrb''': includes raw data + all solutions and intermediate files, use to browse/verify <small>(Slicer mrb file. 12 MB). </small>]
 == Keywords ==