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Multiple Sequence Alignment shrinking

This project contains icy utilitary var classes to help protocol creation.

imglib2-icy ImgLib2 wrappers for Icy.

Creates convex versions of regions of interests in 2D or 3D using the QuickHull library.

Sequence blocks plugin for Icy. This plugin deliver a set of Sequence tools to be used with Protocols (Graphical Programming).

This project is dedicated to protocol blocks generating random objects:

doubles integers subimages

Local z-projection via the determination of a plane of reference.

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"

building prefix tree from LIN codes

The Oshi core library (JDK6) for Icy

https://github.com/oshi/oshi

Translating the maximum number of codons using the minimum number of ORFs

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