Difference between revisions of "2011 Summer Project Week Integrate BRAINSCut into Slicer3"
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<gallery> | <gallery> | ||
Image:PW-MIT2011.png|[[2011_Summer_Project_Week#Projects|Projects List]] | Image:PW-MIT2011.png|[[2011_Summer_Project_Week#Projects|Projects List]] | ||
− | File:BRAINSCutFigure.png|BRAINSCut Result Example | + | File:BRAINSCutFigure.png|BRAINSCut: Result Example After Rendering with Slicer Model Maker |
+ | File:ProbabilityMaps.png|BRAINSCut: Probability Map Example for Sub-cortical regions of brain to identify ROI | ||
+ | File:GradientFeatureComparison.png |BRAINSCut: One of Feature Images. | ||
+ | File:Caudates.png|BRAINSCut: Caudate test statistics between BRAINSCut output and Manual Traces | ||
+ | File:Putamens.png|BRAINSCut: Putamen test statistics between BRAINSCut output and Manual Trace | ||
+ | File:BRAINSCutThalamus.png|BRAINSCut: Thalamus test statistics between BRAINSCut output and Manual Trace | ||
+ | File:HippoWithSOnly.png|BRAINSCut: Hippocampus test statistics between BRAINSCut output and Manual Trace | ||
</gallery> | </gallery> | ||
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==Key Investigators== | ==Key Investigators== | ||
− | * University of Iowa: Eunyoung(Regina) Kim | + | * University of Iowa: Eunyoung(Regina) Kim, Hans Johnson, Mark Scully |
<div style="margin: 20px;"> | <div style="margin: 20px;"> | ||
− | <div style="width: | + | <div style="width: 40%; float: left; padding-right: 3%;"> |
<h3>Objective</h3> | <h3>Objective</h3> | ||
− | # | + | #Integration of BRAINSCut into Slicer3/Slicer4 |
− | # | + | #Integration of GMI feature images into BRAINSCut |
− | # | + | #Test BRAINSCut |
</div> | </div> | ||
− | <div style="width: | + | <div style="width: 40%; float: left; padding-right: 3%;"> |
<h3>Approach, Plan</h3> | <h3>Approach, Plan</h3> | ||
− | # | + | # Check dependencies of BRAINSCut and integrate into Slicer CLM. |
− | + | #Process test data set to verify | |
− | #: | + | # Submit caudate results to the CAUSE07 Challenge 'http://www.cause07.org/' |
− | + | </div> | |
</div> | </div> | ||
− | |||
− | |||
<h3>Progress</h3> | <h3>Progress</h3> | ||
− | + | # BRAINSCut Incorporating with Slicer3 DONE | |
+ | # Generating BRAINSCut model for subcortical structures: caudate, putamen, thalamus, and hippocampus. DONE | ||
+ | # Verifying generated model by comparing manual traces. DONE | ||
+ | # Process 230 data to generate hippocampus. DONE | ||
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− | |||
− | |||
<div style="width: 97%; float: left;"> | <div style="width: 97%; float: left;"> | ||
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==References== | ==References== | ||
+ | #Powell, S., Magnotta, V., Johnson, H., and . . . , V. J., “Registration and machine learning-based automated segmentation of subcortical and cerebellar brain . . . ,” NeuroImage (Jan 2008) | ||
+ | #Eun Young Kim, Hans Johnson, "Multi-structure segmentation of multi-modal brain images using artificial neural networks", SPIE Proceedings Paper (Mar 2010) | ||
+ | |||
+ | ==Download Page== | ||
+ | |||
+ | http://www.nitrc.org/projects/brainscut | ||
==Delivery Mechanism== | ==Delivery Mechanism== | ||
− | |||
− | |||
This work will be delivered to the NAMIC Kit as a | This work will be delivered to the NAMIC Kit as a |
Latest revision as of 14:36, 24 June 2011
Home < 2011 Summer Project Week Integrate BRAINSCut into Slicer3Integrate BRAINSCut into Slicer3
Key Investigators
- University of Iowa: Eunyoung(Regina) Kim, Hans Johnson, Mark Scully
Objective
- Integration of BRAINSCut into Slicer3/Slicer4
- Integration of GMI feature images into BRAINSCut
- Test BRAINSCut
Approach, Plan
- Check dependencies of BRAINSCut and integrate into Slicer CLM.
- Process test data set to verify
- Submit caudate results to the CAUSE07 Challenge 'http://www.cause07.org/'
Progress
- BRAINSCut Incorporating with Slicer3 DONE
- Generating BRAINSCut model for subcortical structures: caudate, putamen, thalamus, and hippocampus. DONE
- Verifying generated model by comparing manual traces. DONE
- Process 230 data to generate hippocampus. DONE
References
- Powell, S., Magnotta, V., Johnson, H., and . . . , V. J., “Registration and machine learning-based automated segmentation of subcortical and cerebellar brain . . . ,” NeuroImage (Jan 2008)
- Eun Young Kim, Hans Johnson, "Multi-structure segmentation of multi-modal brain images using artificial neural networks", SPIE Proceedings Paper (Mar 2010)
Download Page
http://www.nitrc.org/projects/brainscut
Delivery Mechanism
This work will be delivered to the NAMIC Kit as a
- NITRIC distribution
- Slicer Module
- Built-in:
- Extension -- commandline:
- Extension -- loadable: