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Endrov


Endrov started development in 2007 by Johan Henriksson in the group of Thomas Bürglin group / Karolinska insitutet. At that time it was merely a tool to support the analysis of C. elegans embryogenesis. It was decided to not base it on ImageJ because little of it could be reused, many of the problems came from the core design. Since then the scope of Endrov has expanded to be useful for all image processing and be able to replace ImageJ.

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Icy

Reproducing an experiment doesn’t stop at the bench when images are concerned. Icy is an open source bioimaging software package that aims to provide a framework for authors to share, and others to reproduce, research once the sample hits the microscope. Icy was released in April 2011 and is being developed at the Quantitative Image Analysis Unit at the Pasteur Institute in France by Jean-Christophe Olivo-Marin and his team.

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ImgLib2

ImgLib2 is a generic, multi-dimensional data processing library allowing for processing algorithms to be defined in a data-type, dimension, and container independent manner. Due to its interface-based design, it is easy to write adapters to virtually all existing data containers. It is the basis of KNIME, ImageJ2 and a couple of Fiji plugins.

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Fiji

Fiji is just ImageJ: a distribution of ImageJ (and ImageJ2) together with Java, Java 3D and a lot of plugins organized into a coherent menu structure. The main focus of Fiji is to assist research in life sciences. It is a free, open-source, community-driven project.

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OpenCV / Image Processing

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MATLAB/ Qu

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3D Area

Package/Library: 
Icy
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3D ROI stacks

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ROI image process tutorial 2

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ROI image process tutorial 1

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