Asymptote is a powerful descriptive 2D and 3D vector graphics language for technical drawing, inspired by MetaPost but with an improved C++-like syntax. It provides for figures the same high-quality level of typesetting that LaTeX does for scientific text. Asymptote is a programming language as opposed to just a graphics program. It can exploit the best features of script (command-driven) and graphical user interface (GUI) methods. High-level graphics commands are implemented in the language itself, allowing them to be easily tailored to specific applications.
Calc is arbitrary precision arithmetic system that uses a C-like language. It's useful as a calculator, an algorithm prototype, and as a mathematical research tool. More importantly, calc provides a machine-independent means of computation. Calc comes with a rich set of builtin mathematical and programmatic functions.
GNU TeXmacs is a free wysiwyw (what you see is what you want) editing platform with special features for scientists. The software aims to provide a unified and user friendly framework for editing structured documents with different types of content: text, mathematics, graphics, interactive content. TeXmacs can also be used as an interface to many external systems for computer algebra, numerical analysis, and statistics. New presentation styles can be written by the user and new features can be added to the editor using Scheme.
Armadillo is a C++ linear algebra library (matrix maths) aiming towards a good balance between speed and ease of use. Integer, floating point, and complex numbers are supported, as well as a subset of trigonometric and statistics functions. Various matrix decompositions are provided through optional integration with LAPACK and ATLAS libraries. A delayed evaluation approach, based on template meta-programming, is used (during compile time) to combine several operations into one and reduce or eliminate the need for temporaries.
Gmsh is an automatic 3D finite element grid generator with built-in CAD and post-processing facilities. Its design goal is to provide a simple meshing tool with parametric input and advanced visualization capabilities. It is built around four modules: geometry, mesh, solver, and post-processing. The specification of any input to these modules is done either interactively using the graphical user interface (based on FLTK and OpenGL) or in ASCII text files using Gmsh's own scripting language.
Botan is a crypto library written in C++. It provides a variety of cryptographic algorithms, including common ones such as AES, MD5, SHA, HMAC, RSA, Diffie-Hellman, DSA, and ECDSA, as well as many others that are more obscure or specialized. It also offers SSL/TLS (client and server), X.509v3 certificates and CRLs, and PKCS #10 certificate requests. A message processing system that uses a filter/pipeline metaphor allows for many common cryptographic tasks to be completed with just a few lines of code. Assembly and SIMD optimizations for common CPUs offers speedups for critical algorithms like AES and SHA-1.
GetDP is a general finite element solver using mixed elements to discretize de Rham-type complexes in one, two, and three dimensions. The main feature of GetDP is the closeness between the input data defining discrete problems (written by the user in ASCII data files) and the symbolic mathematical expressions of these problems.
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.