EM Segmentation For Orthopaedic Applications - Revision history

Vmagnotta at 18:30, 20 January 2010

2010-01-20T18:30:51Z

2008-01-07T00:15:01Z

2008-01-07T00:13:32Z

2008-01-07T00:10:25Z

2008-01-07T00:07:35Z

2008-01-06T20:24:12Z

2008-01-06T20:10:48Z

2007-10-30T01:06:02Z

2007-10-30T01:04:10Z

2007-10-29T22:05:58Z

@@ Line 64: / Line 64: @@
 '''To Do:'''
-* Evaluate the Slicer3 EM Segmentation Module
+*Update the the tutorial to support the Slicer3 Workflow
-**Example datasets sent to Brad Davis for evaluation of the Slicer3 EM Segmentation for non-neuro applications
+**Tutorial will be developed by Austin Ramme - In progress
-**Discussion of the results will take place at 2008 AHM
+*Slicer3 Segmentation applied to the femur
-* Update the the tutorial to support the Slicer3 Workflow
+**Using BRAINSFit for mapping of probability information to the subject images
-**Summer of 2008 - Tutorial will be developed by Austin Ramme
-* Determine if registration tools in Slicer are adequate for this work.
+'''Manuscript:'''
-* Manuscript currently in preparation: ''Automated Phalanx Bone Segmentation Using the Expectation Maximization Algorithm''
+*Ramme AJ, Devries N, Kallemyn NA, Magnotta VA, Grosland NM. [http://www.springerlink.com/content/h972u63630311g78/ Semi-automated Phalanx Bone Segmentation Using the Expectation Maximization Algorithm]. J Digit Imaging. 2008.
 '''Key Investigators:'''

@@ Line 70: / Line 70: @@
 **Summer of 2008 - Tutorial will be developed by Austin Ramme
 * Determine if registration tools in Slicer are adequate for this work.
 '''Key Investigators:'''

@@ Line 57: / Line 57: @@
 |}
-* Example of Validation Results:
+* Example of Validation Results is shown below in the figures
@@ Line 83: / Line 83: @@
 [[Image:EM-Segment-Phalanx.png|left|thumb|300px|Surface models from EM Segmentation generated via Slicer3]]
-[[Image:EM-Segment-Proximal.png|left|thumb|300px|Results of the EM Segmentation for the Proximal Pahalanx]]
+[[Image:EM-Segment-Proximal.png|left|thumb|450px|Results of the EM Segmentation for the Proximal Pahalanx]]

← Older revision		Revision as of 00:10, 7 January 2008
Line 56:		Line 56:
	\| Distal \|\| 0.72		\| Distal \|\| 0.72
	\|}		\|}
		+
		+	* Example of Validation Results:
		+
		+	[[Image:EMSegment-Phalanx-DistanceMap.jpg\|left\|thumb\|600px\|Validation of EM Segmentation for the phalanx bones of the hand. Distance of automated segmentation versus physical laser surface scanning]]
		+

@@ Line 15: / Line 15: @@
 '''Results:'''
-Finger	Phalanx Segment 	Average Relative Overlap
+{| class="wikitable" border="1" cellpadding="2"
-Index (14 subjects)	Proximal	0.87
+|+Relative Overlap with Manual Rater
-	Medial	0.80
+|-
-	Distal	0.70
+! Finger !! Phalanx Segment !! Average Relative Overlap
-Index (2 subjects)	Proximal	0.87
+|-
-	Medial	0.76
+! Index (14 subjects)
-	Distal	0.60
+| Proximal || 0.87
-Middle (2 subjects)	Proximal	0.79
+|-
-	Medial	0.74
-	Distal	0.71
+| Medial || 0.80
-Ring (2 subjects)	Proximal	0.76
+|-
-	Medial	0.82
-	Distal	0.80
+| Distal || 0.70
-Pinky (2 subjects)	Proximal	0.70
+|-
-	Medial	0.73
+! Middle (2 subjects)
-	Distal	0.72
+| Proximal || 0.79
 '''To Do:'''

@@ Line 6: / Line 6: @@
 * We have utilized the Slicer2.7 EM Segmentation Module for segmentation of the phalanx bones
-*# Registration was performed outside of SLicer using ITK registration algorithms that are available in the IaFeMesh software. This includes Thin plate spline, B-Spline and rigid registration algorithms.
+*# Registration was performed outside of Slicer using ITK registration algorithms that are available in the IaFeMesh software. This includes Thin plate spline, B-Spline and rigid registration algorithms.
 *# Probability map information was created from a single subject used as the atlas image and filtered using a Gaussian filter.
-* Initial evaluation has been carried out on five subjects that also had been segmented using manual segmentation
+* Initial evaluation has been performed
 * Work is underway to develop a Slicer2.7 tutorial for this segmentation ([[Image:Draft_EM_Segment_Tutorial_9_12.pdf|Draft Copy]])
@@ Line 21: / Line 23: @@
 '''Links:'''
-*[http://www.ccad.uiowa.edu/mimx Musculoskeletal Imaging, Modelling and Experimentation (MIMX)]
+*[http://www.ccad.uiowa.edu/mimx Musculoskeletal Imaging, Modeling and Experimentation (MIMX)]

@@ Line 26: / Line 26: @@
 '''Figures:'''
-[[Image:Slicer3Surface.png|left|thumb|300px|Surface of proximal phalanx generated via Slicer3]]
+[[Image:EM-Segment-Phalanx.png|left|thumb|300px|Surface models from EM Segmentation generated via Slicer3]]
-[[Image:VoxelMesh.png|left|thumb|300px|Voxel mesh generated via Slicer3 execution Model]]
+[[Image:EM-Segment-Proximal.png|left|thumb|300px|Results of the EM Segmentation for the Proximal Pahalanx]]