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PGF and TikZ - PGF/TikZ is a tandem of languages for producing vector graphics from a geometric/algebraic...
asciiflow - Infinite ASCII diagrams, save to Google Drive, resize, freeform draw, and export straight to text/html.
LaTeXDraw - LaTeXDraw is a graphical drawing editor for LaTeX.
Core2D - A multi-platform data driven 2D diagram editor.
Diagrams Haskell package - Diagrams is a powerful, flexible, declarative domain-specific language for creating vector...
PathVisio - Open-source and free pathway analysis and pathway drawing software. Allows drawing, editing and analysis of biological pathways.