Farsight nuclear segmentation as GoFigure plugin

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  Projects List

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  Farsight nuclei segmentation

Key Investigators

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

Project

• GoFigure2 http://gofigure2.sourceforge.net

GoFigure2 is a software

• Farsight http://www.farsight-toolkit.org/wiki/Main_Page

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