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Cytoscape - Cytoscape Official Web Site
Dia - Dia is a GTK+ based diagram creation program for GNU/Linux, MacOS X, Unix, and Windows, and is released under the GPL license.
Gephi - Gephi is an open-source software for visualizing and analyzing large networks graphs.
draw.io - Online diagramming application
ikolinks - Do everything with one platform. The #1 no code bio pages tool using AI.
yEd - yEd is a free desktop application to quickly create, import, edit, and automatically arrange diagrams. It runs on Windows, Mac OS X, and Unix/Linux.