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Fiji plugin to register 3D movies and tracks of cells moving on fiber imaged in transmitted light.

A Fiji tool to detect, track and analyze cell-to-cell contacts.

First reported in Samassa et al., 2020, "Shigella impairs human T lymphocyte responsiveness by hijacking actin cytoskeleton dynamics and TCR vesicular trafficking"

A simple plugin to randomly assign colors to ROIs in sequences. Also available for protocols

Icy wrapper for the Apache Commons CSV library.

Compute the intensity profile of ROI contour along Z (3D) and T (timelaps) dimension. Generates a workbook document containing all the intensity values for each point of the contour, can be plotted as graph or exported as CSV

FASTQ summary

B-spline registration adaptation for ICY based on BunwarpJ plugin from ImageJ

Big Image Tools - Read and write large 2D images with Icy

This Icy bioimage analysis plugin was developped to help biologists detect late cytokinetic bridges on static immunofluorescence images.

Track Motion Profiler plugin for Icy. This plugin adds Motion Profiler and Motion Filter processors to Track Manager.

Fast trimming of sequencing reads