Difference between revisions of "Farsight nuclear segmentation as GoFigure plugin"

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<gallery>
 
<gallery>
 
Image:PW-MIT2010.png|[[2010_Summer_Project_Week#Projects|Projects List]]
 
Image:PW-MIT2010.png|[[2010_Summer_Project_Week#Projects|Projects List]]
 +
Image:Hippocampus.jpg|Farsight nuclei segmentation
 
</gallery>
 
</gallery>
  
 
==Key Investigators==
 
==Key Investigators==
 
* Harvard Medical School: Arnaud Gelas, Sean Megason
 
* Harvard Medical School: Arnaud Gelas, Sean Megason
−
* RPI: Badri Roysam
+
* RPI: Badri Roysam, Raghav Padmanabhan
  
 
== Project ==
 
== Project ==
 +
 +
* GoFigure2 http://gofigure2.sourceforge.net
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GoFigure2 is a software
 +
 +
* Farsight http://www.farsight-toolkit.org/wiki/Main_Page
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Farsight project is Developing Quantitative Tools for Studying Complex and Dynamic Biological Micro-environments from 4D/5D Microscopy Data
  
 
<div style="margin: 20px;">
 
<div style="margin: 20px;">
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<h3>Objective</h3>
 
<h3>Objective</h3>
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 +
* Enable GoFigure2 plugin mechanism
 +
* Develop one GoFigure2's plugin from Farsight nuclear segmentation
  
 
</div>
 
</div>
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<h3>Approach, Plan</h3>
 
<h3>Approach, Plan</h3>
 +
 +
* Make a simple Image To Image plugin work into GoFigure2
 +
* Download, build and install farsight
 +
* Run Farsight nuclear segmentation as an executable
 +
** Import results into GoFigure2 (see previous project)
 +
* Make a plugin from this application
  
 
</div>
 
</div>
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<h3>Progress</h3>
 
<h3>Progress</h3>
 +
 +
* GoFigure2's Image to Image plugins can be
 +
** compiled
 +
** loaded
 +
** ran
 +
* There is one bug when importing back the results of the plugin into GoFigure
  
 
</div>
 
</div>

Latest revision as of 17:57, 15 June 2010

Home < Farsight nuclear segmentation as GoFigure plugin

Key Investigators

  • Harvard Medical School: Arnaud Gelas, Sean Megason
  • RPI: Badri Roysam, Raghav Padmanabhan

Project

GoFigure2 is a software

Farsight project is Developing Quantitative Tools for Studying Complex and Dynamic Biological Micro-environments from 4D/5D Microscopy Data

Objective

  • Enable GoFigure2 plugin mechanism
  • Develop one GoFigure2's plugin from Farsight nuclear segmentation

Approach, Plan

  • Make a simple Image To Image plugin work into GoFigure2
  • Download, build and install farsight
  • Run Farsight nuclear segmentation as an executable
    • Import results into GoFigure2 (see previous project)
  • Make a plugin from this application

Progress

  • GoFigure2's Image to Image plugins can be
    • compiled
    • loaded
    • ran
  • There is one bug when importing back the results of the plugin into GoFigure
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