BALLView is an extensible viewer for bio-molecular structures. It provides all standard models and offers rich functionality for molecular modeling and simulation, including molecular mechanics methods (AMBER, CHARMM, and MMFF94 force fields), continuum electrostatics methods employing a Finite-Difference Poisson Boltzmann solver, secondary structure calculation, molecular editing and docking. Since BALLView is based on BALL (the Biochemical ALgorithms Library), it is easily extensible on the level of C++ code. In addition, it provides a Python interface with Integrated Development Environment features to allow interactive rapid prototyping.
The Chemistry Development Kit (CDK) is a library of Java classes for chemo-, bioinformatics, computational chemistry, and chemometrics. It provides important algorithms like substructure search, SMILES, Gasteiger charges, QSAR descriptor calculation, 3D structure generation, 2D layout and rendering, many IO formats, atom typing, and more.
Coin is an implementation of Open Inventor. Open Inventor is the de facto standard API for retained-mode 3D graphics programming. Open Inventor has a highly extensible design, and has been designed to allow for rapid development of highly interactive 3D graphics applications in the fields of CAD, engineering, scientific computing, simulation, VRML, and visualization.
CryptEngine is a fast 3D engine for Java. It is based on OpenGL and provides components and objects allowing the description and rendering of 3D scenes. Unlike several other 3D engines, it focuses on rapid application development and makes it possible to create and render complex 3D scenes without having to learn OpenGL. A large collection of demos are included, demonstrating the many features and providing you with valuable design techniques and tricks. It also facilitates game design with a sound system, scripting, and networking.
Drome Engine is a 3D game engine written in C++ using OpenGL for graphics rendering. Some of its features include dynamic lightmaps, stenciled shadow volumes, particle effects, md2 model loading, PCX and PNG image loading, TrueType font loading, simple physics, and a Quake-style console.