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ChemDraw - ChemDraw - The Gold Standard for Chemical Structure Drawing and Research Publications.
Icy - Icy is an open community platform for bioimage informatics
ImageJ - and Other Health Care
Gnome Chemistry Utils - The Gnome Chemistry Utils include six chemistry related programs:
JMicroVision - Image analysis toolbox: measuring and quantifying components of high-definition images
Avogadro - Avogadro is a free, fantastically easy to use molecule editor.