bioimaging and optics platform BIOP

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Color Segmentation

Student: Joël Leuenberger,

This ImageJ plugin allows for color image segmentation based on user-defined input. The user samples the colors he wants to separate and the plugin provides a segmented view.


In the field of classical histological staining, it is often necessary to characterize different kinds of tissue in the acquired transmission images.

"Color Segmentation" is a plugin developed for color-based images pixels classification, for the public-domain image analysis package ImageJ.
The software implements two different algorithms for pixel clustering based on the distribution of the pixels in the color space and some spatial constraint.
The cluster can be initialized ad hoc by the user in order to get better segmentation results.

Some Image

Example of segmented dataset using both algorithms: The Hidden Markov Model and the K-Means.


Download Documentation (PDF)

In collaboration with BioMedical Imaging Group 2006-2008, Dr. Daniel Sage, Sarria JC Floyd, Alessandra Griffa


Another Figure

Fig. 1: Another output. The Plugin provides the binary masks of the different classes


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BioImaging and Optics platform (PTBIOP)

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