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"
Educational demo of design patterns which are useful for algorithmics
Template to create new Icy plugin (POM file and base plugin class)
Local z-projection via the determination of a plane of reference.
Creating an AGP file from a FASTA-formatted scaffold sequence file
Bio-Formats library patched for Icy.
The patch consist of replacing Apache Commons IO library by a newer version and also replacing org.json library with the custom version embedded into Micro-Manager to make it work properly.
Tools to measure tracking performance with the ISBI Challenge on Single-Particle Tracking metrics.
I adapted and copied code from by N. Chenouard, F. De Chaumon and S. Dallongeville so that it can run in batch and without Icy.
An Icy plugin made for random generation of crops on a given sequence