ferreol/icy repository overview

Icy - copyright 2019 - Institut Pasteur An open community platform for bio image analysis - http://icy.bioimageanalysis.org⁠

Icy has been created by the Bio Image Analysis team at Institut Pasteur - https://research.pasteur.fr/fr/team/bioimage-analysis⁠ Icy is free and open source, it has been funded both by Institut Pasteur and the FBI consortium - https://france-bioimaging.org⁠

Source code is provided in the main application package (in the icy.jar archive file) but can also be found on the GitHub repository - https://github.com/Icy-imaging/Icy-Kernel⁠

⁠Note for OSX users

First, you need to have java installed on your system. Sometime java is installed but just for web applications (JRE) in which case you need to install the JDK 8 for Mac OSX. We strongly recommend to keep JDK 8 which is more stable than newer version of Java (9 or above) so if possible try to keep Java 8 as the default version. Then be sure to have Icy installed in Applications folder. The first time you try to launch the application it may not work because of the default Security preferences. You can force it by doing right click on the application icon (or Ctrl+click) and use 'Open' command, then validate the operation. You should now be able to use Icy normally :)

⁠Contributors

Kernel architecture and code Stephane Dallongeville and Fabrice de Chaumont

Website graphic design Marcio de Moraes Marim

Website code Fabrice de Chaumont

EzPlug and Protocols (as many others plugins) Alexandre Dufour

Scripting Thomas Provoost, Timothée Lecomte and Stephane Dallongeville

MicroManager for Icy Thomas Provoost, Irsath Nguyen and Stephane Dallongeville

Head of unit Jean-Christophe Olivo-Marin

Many thanks to beta testers and contributors Nicolas Chenouard Alexandre Dufour Nicolas Hervé Vannary Meas-Yedid Sorin Pop Thibault Lagache Biomedical Imaging Group - http://bigwww.epfl.ch/⁠ M. Geissbuehler and T. Lasser - http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-21-8-9862⁠ "How to display data by color schemes compatible with red-green color perception deficiencies" Opt. Express 21, 9862-9874 (2013)

Libraries used in Icy Bio-Formats - http://www.openmicroscopy.org/site/products/bio-formats⁠ VTK - http://www.vtk.org/⁠ Substance / Insubstancial - https://github.com/Insubstantial/insubstantial⁠ Flanagan - http://www.ee.ucl.ac.uk/~mflanaga/java/⁠ Jama - http://math.nist.gov/javanumerics/jama/⁠ JFreeChart - http://www.jfree.org/jfreechart/⁠ JTransforms - https://sites.google.com/site/piotrwendykier/software/jtransforms⁠ Xuggler - http://www.xuggle.com/xuggler/⁠

Libraries/tools integrated within the Icy website phpBB - TinyMCE

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