Difference between revisions of "2011 Summer Project Week Integrate BRAINSCut into Slicer3"
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==Key Investigators== | ==Key Investigators== | ||
| − | * University of Iowa: Eunyoung(Regina) Kim | + | * University of Iowa: Eunyoung(Regina) Kim, Hans Johnson, Mark Scully |
| Line 22: | Line 22: | ||
<h3>Objective</h3> | <h3>Objective</h3> | ||
| − | # | + | #Integration of BRAINSCut into Slicer3/Slicer4 |
| − | # | + | #Integration of GMI feature images into BRAINSCut |
| − | # | + | #Test BRAINSCut |
</div> | </div> | ||
| Line 31: | Line 31: | ||
<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> | </div> | ||
| Line 39: | Line 39: | ||
<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 | ||
| Line 47: | Line 50: | ||
#Powell, S., Magnotta, V., Johnson, H., and . . . , V. J., “Registration and machine learning-based automated segmentation of subcortical and cerebellar brain . . . ,” NeuroImage (Jan 2008) | #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) | + | #Eun Young Kim, Hans Johnson, "Multi-structure segmentation of multi-modal brain images using artificial neural networks", SPIE Proceedings Paper (Mar 2010) |
==Download Page== | ==Download Page== | ||
Latest revision as of 14:36, 24 June 2011
Home < 2011 Summer Project Week Integrate BRAINSCut into Slicer3
BRAINSCut: Result Example After Rendering with Slicer Model Maker
BRAINSCut: Probability Map Example for Sub-cortical regions of brain to identify ROI
BRAINSCut: One of Feature Images.
BRAINSCut: Caudate test statistics between BRAINSCut output and Manual Traces
BRAINSCut: Putamen test statistics between BRAINSCut output and Manual Trace
BRAINSCut: Thalamus test statistics between BRAINSCut output and Manual Trace
BRAINSCut: Hippocampus test statistics between BRAINSCut output and Manual Trace
Integrate 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:
