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PLplot is a cross-platform, scientific graphics plotting library that supports math symbols and human languages (via UTF-8 user input strings); plot capabilities for multiple non-interactive plot file formats and in multiple interactive environments; and bindings for multiple computer languages.
PyMOL is an OpenGL based molecular visualization system
The Open-Source PyMOL repository has been moved to github:
https://github.com/schrodinger/pymol-open-source
We still use the pymol-users mailing list here on sourceforge. Please subscribe for community support: https://pymol.org/maillist (Note: SourceForge email newsletter and special offers are optional and can be unchecked)
The PyMOL community wiki has its own home:
https://pymolwiki.org/
A library including the whole bunch of standard algorithms in graph optimization and drawing. On top of this, a GUI for manipulating and editing of graphs.
ProcessViewBrowser & ProcessViewServer represent an OpenSource attempt to industrial process visualization. It is based on Qt and is very portable. (Now also available as commercial software)
CAVOR is an engine for building apps that involve both graphic and text/numeric data. Primarily GIS is the initial focus, but consider also CAD, CASE, project management (eg PERT charts), and others. Built-in scripting, C API, also supports Tcl and Java.