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This plugin is designed to manipulate binary masks over images. It contains all the basic tools to manage such objects.

Backbone for automatic tagging backends; includes a Python implementation of PlanarLarvae.jl features and the Julia-Python communication layer

Computing the probability that a phylogenetic tree is the result of a Yule process

Google Gson library for Icy : https://github.com/google/gson

ROI Inclusion Analysis plugin for Icy.

Python code for the image analysis performed for the paper

"Clostridioides difficile binary toxin CDT induces biofilm-like persisting microcolonies" J. MEZA TORRES et al.

A toolbox to chain image analysis processes

Intensity projection plugin. It does intensity project along depth or time with multiple algorithms: mean, max, median, variance, standard deviation, saturated sum. Projection can also be restricted to ROI.

A patched version of the Jama library. Internal structures accessors and package name added. The original version can be found here : http://math.nist.gov/javanumerics/jama/

Comparaisons d'ensembles de trajectoires

My own toolbox used for all the plugins I developed.

Provides 3D vector mathematics classes.

This Icy plugin allows to compute and display the histogram of a sequence, with a more accurate control on the histogram parameters. It also enables the computation of histograms on ROIs.