Difference between revisions of "2009 Winter Project Week Gofigure LevelSet"

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(New page: {| |thumb|320px|Return to [[2009_Winter_Project_Week|Project Week Main Page ]] |[[]] |[[]] |} __NOTOC__ ===Key Investigators=== * kishore mosanliganti, Harvard ...)
 
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===Key Investigators===
 
===Key Investigators===
* kishore mosanliganti, Harvard Medical School
+
* Kishore Mosaliganti, Harvard Medical School
 
* Arnaud Gelas,        Harvard Medical School
 
* Arnaud Gelas,        Harvard Medical School
 
* Alexandre Gouaillard, Harvard Medical School
 
* Alexandre Gouaillard, Harvard Medical School
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<h1>Objective</h1>
 
<h1>Objective</h1>
* Implement references 1, 2, 3 in ITK
+
* Implement a 3D+t image analysis pipeline for multistain microscopy images
* Write corresponding IJ paper
+
* Use references 1-4 for preprocessing, cell segmentation and tracking in ITK
* submit to IJ
+
* Make a submission to Insight Journal
  
  
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<h1>Approach, Plan</h1>
 
<h1>Approach, Plan</h1>
* Filters are already implemented
+
* First prototype of filters are already implemented
* Code Review with an ITK expert (luis/bill/jim?)
+
* Code review to be done with an ITK expert (luis/bill/jim?)
* Run on cell datasets
+
* Run on cell datasets and build relevant tests
 
* Write IJ paper
 
* Write IJ paper
 
* Submit
 
* Submit

Revision as of 15:49, 5 January 2009

Home < 2009 Winter Project Week Gofigure LevelSet
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Key Investigators

  • Kishore Mosaliganti, Harvard Medical School
  • Arnaud Gelas, Harvard Medical School
  • Alexandre Gouaillard, Harvard Medical School


Objective

  • Implement a 3D+t image analysis pipeline for multistain microscopy images
  • Use references 1-4 for preprocessing, cell segmentation and tracking in ITK
  • Make a submission to Insight Journal


Approach, Plan

  • First prototype of filters are already implemented
  • Code review to be done with an ITK expert (luis/bill/jim?)
  • Run on cell datasets and build relevant tests
  • Write IJ paper
  • Submit

Progress



References

  1. Kishore Mosaliganti, Lee Cooper, Richard Sharp, Raghu Machiraju, Gustavo Leone, Kun Huang and Joel Saltz. Reconstruction of Cellular Biological Structures from Optical Microscopy Data. In IEEE Transactions in Visualization and Computer Graphics, 14 (4), pp. 863-876, July/August 2008.
  2. Tensor Classification of N-point Correlation Function features for Histology Tissue Segmentation. K. Mosaliganti, F. Janoos, O. Irfanoglu, R. Ridgway, R. Machiraju, K. Huang, J. Saltz, G. Leone and M. Ostrowski. Special Issue on Medical Image Analysis with Applications in Biology, Journal of Medical Image Analysis, 2008.
  3. Gang Li, Tianming Liu, Ashley Tarokh, Jingxin Nie, Lei Guo, Andrew Mara, Scott Holley and Stephen TC Wong. 3D cell nuclei segmentation based on gradient flow tracking. BMC Cell Biology, 8:40, 2007.