Projects:ARRA:SlicerWF:UseCaseScenarios - Revision history

Azaitsev: /* Use-case MS lesion Assessment */

2009-12-11T22:27:47Z

Use-case MS lesion Assessment

Azaitsev: /* Use-case MS lesion Assessment */ Added scenario description

2009-12-11T22:23:37Z

Use-case MS lesion Assessment: Added scenario description

Azaitsev: /* Use-case COPD */

2009-11-20T22:45:05Z

Use-case COPD

Azaitsev at 21:33, 20 October 2009

2009-10-20T21:33:41Z

Kikinis at 21:01, 20 October 2009

2009-10-20T21:01:55Z

Kikinis: /* Use-case MS lesion QC */

2009-10-20T21:01:01Z

Use-case MS lesion QC

Kikinis at 21:00, 20 October 2009

2009-10-20T21:00:43Z

Kikinis at 20:07, 20 October 2009

2009-10-20T20:07:55Z

Kikinis at 20:02, 20 October 2009

2009-10-20T20:02:30Z

Kikinis: Created page with ' Back to SPINE ARRA page Oct-20-2009 Meeting with Charles and Alex. Discussed following use-case scenario: Data lives in XNAT Black box proce…'

2009-10-20T20:01:00Z

Created page with ' Back to SPINE ARRA page *Oct-20-2009 * Meeting with Charles and Alex. Discussed following use-case scenario: ** Data lives in XNAT ** Black box proce…'

New page

[[Projects:ARRA:SlicerWF|Back to SPINE ARRA page]]

*Oct-20-2009
* Meeting with Charles and Alex. Discussed following use-case scenario:
** Data lives in XNAT
** Black box processing pipeline applied to data
** Results back to XNAT
** Data loaded into Slicer for interactive editing of label maps as QC
** Results loaded back into Slicer

@@ Line 15: / Line 15: @@
 # Detailed Scenario is described below
-'''Step 1 '''
+'''Step 1 ''' Download Images from Xnat
-Download Images from Xnat
+Convert T1, T2 images into Slicer3 format
-T1, T2 images in Slicer3 format
+'''Step 2 ''' (preprocessing):
 Register T2 to T1
@@ Line 36: / Line 34: @@
 Intensity Normalization to the "gold standard" image(s) in case of automated runs
-'''Step 5'''
+'''Step 5''' Generate EM Segmentation Scene from the template.
-'''Step 6'''
+'''Step 6''' Load The scene into Slicer3
 Train or re-train data for intensity distribution
-'''Step 8'''
+'''Step 8''' Run EM Segmenter
-'''Step 11'''
+'''Step 9''' Repeat Steps 7 and 8 if needed
-Visual Lesion Assessment
+'''Step 10''' Save EM Segmented Label Map Volume with Feducials' coordinates
-'''Step 12'''
+'''Step 11''' Visual Lesion Assessment
-Upload Results to XNat
+'''Step 12''' Upload Results to XNat
 =Use-case COPD=

@@ Line 13: / Line 13: @@
 # Workflow "blackbox" generates lesion maps along with lesion coordinates files
 # Human Interaction module loads image volumes into Slicer with fiduciary markers for lesion assessment
 =Use-case COPD=
 [[File:WF_IntegrationDiagram_General.jpg]]

@@ Line 14: / Line 14: @@
 # Human Interaction module loads image volumes into Slicer with fiduciary markers for lesion assessment
 =Use-case COPD=
 =External use-cases=
 * see also [[2009_Summer_Project_Week_Slicer3_XNAT_usecases#Use_Case_3:_Quality_Control_Processing_of_Large_Studies| Hans Johnsons scenario]] for similarities.

@@ Line 10: / Line 10: @@
 ** Data loaded into Slicer for interactive editing of label maps as QC
 ** Results loaded back into XNAT
-=Use-case MS lesion QC=
+=Use-case MS lesion Assessment=
 # Workflow "blackbox" generates lesion maps along with lesion coordinates files
 # Human Interaction module loads image volumes into Slicer with fiduciary markers for lesion assessment

@@ Line 10: / Line 10: @@
 ** Data loaded into Slicer for interactive editing of label maps as QC
 ** Results loaded back into XNAT
 =Use-case MS lesion QC=
 # Workflow "blackbox" generates lesion maps along with lesion coordinates files
 # Human Interaction module loads image volumes into Slicer with fiduciary markers for lesion assessment
-=Use-case COPD=
+=External use-cases=

@@ Line 1: / Line 1: @@
   [[Projects:ARRA:SlicerWF|Back to SPINE ARRA page]]
 *Oct-20-2009
 * Meeting with Charles and Alex. Discussed following use-case scenario:
@@ Line 9: / Line 10: @@
 ** Data loaded into Slicer for interactive editing of label maps as QC
 ** Results loaded back into XNAT
-* see also [[2009_Summer_Project_Week_Slicer3_XNAT_usecases#Use_Case_3:_Quality_Control_Processing_of_Large_Studies| Hans Johnsons scenario]] for similarities.
+=Use-case COPD=

← Older revision		Revision as of 20:07, 20 October 2009
Line 9:		Line 9:
	** Data loaded into Slicer for interactive editing of label maps as QC		** Data loaded into Slicer for interactive editing of label maps as QC
	** Results loaded back into XNAT		** Results loaded back into XNAT
		+
		+
		+	* see also [[2009_Summer_Project_Week_Slicer3_XNAT_usecases#Use_Case_3:_Quality_Control_Processing_of_Large_Studies\| Hans Johnsons scenario]] for similarities.

@@ Line 5: / Line 5: @@
 ** Data lives in XNAT
 ** Black box processing pipeline applied to data
-** Results back to XNAT
+*** Results back to XNAT after QC for completeness
 ** Data loaded into Slicer for interactive editing of label maps as QC
-** Results loaded back into Slicer
+** Results loaded back into XNAT