Gwyddion is a modular SPM (Scanning Probe Microsope) data visualization and analysis tool. It can be used for all most frequently used data processing operations including: leveling, false color plotting, shading, filtering, denoising, data editing, integral transforms, grain analysis, profile extraction, fractal analysis, and many more. The program is primarily focused on SPM data analysis (e.g. data obtained from AFM, STM, NSOM, and similar microscopes). However, it can also be used for analyzing SEM (scaning electron microscopy) data or any other 2D data.
The FOX (Free Objects for Crystallography) program is made for determining crystal structure ab initio from diffraction data (mostly powder diffraction). It is built on an object-oriented crystallographic computing library called ObjCryst++. FOX features a graphical interface, including a 3D OpenGL display of the crystal structure. It provides a versatile description of the crystal structures (such as atoms, molecules, and polyhedra). Special positions and overlapping atoms are automatically handled without any a priori knowledge.
APBS is a software package for the numerical solution of the Poisson-Boltzmann equation (PBE), one of the most popular continuum models for describing electrostatic interactions between molecular solutes in salty, aqueous media. Continuum electrostatics plays an important role in several areas of biomolecular simulation, including simulation of diffusional processes to determine ligand-protein and protein-protein binding kinetics, implicit solvent molecular dynamics of biomolecules, solvation and binding energy calculations to determine ligand-protein and protein-protein equilibrium binding constants and aid in rational drug design, and biomolecular titration studies.
PDB2PQR is a Python software package that automates many of the common tasks of preparing structures for continuum electrostatics calculations, providing a platform-independent utility for converting protein files in PDB format to PQR format. These tasks include adding a limited number of missing heavy atoms to biomolecular structures, determining side-chain pKas, placing missing hydrogens, optimizing the protein for favorable hydrogen bonding, assigning charge and radius parameters from a variety of force fields.
GaussianBeam is a Gaussian optics simulator. It features table-top display of the optical setup. It computes the beam parameters. You can move optics with the mouse. Available optics: lenses, flat and curved interfaces, mirrors, dielectric slab, and generic ABCD. Magic waist function: given a target waist, GaussianBeam finds the suitable arrangement of lenses. Fit waist function: measure the beam radius or diameter to define the input beam. The ability to save and load configurations.
telepathic-critterdrug is a fork of Critterding, an artificial-life simulation, with five drugs added and a substrate for two kinds of telepathy. The critters are exposed to a secondary retina they can all read and write, using sensors and motors for high intensity or only the power of the minds for lower intensity, though drug use will modulate it. They can blink this and their main retina as a minor grace. The two blue tablets work on inhibitory neurons, and the red ones, excitatory. There is also a purple potentiator.
The Cafu Engine is an all-purpose, modern 3D graphics engine and game development kit. It is feature complete to get you started quickly. It can be used to create a variety of 3D applications, including games, simulations, and training and architectural software. Written in C++, the tools, libraries, and framework have been designed to make the development of new games and other 3D applications easy. They are actively and continuously developed in order to provide the latest technology.