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EMBOSS is a dynamic and comprehensive Open Source package for bioinformatics (DNA and protein sequence analysis, protein structure, phylogenetics, etc.). EMBOSS is written in C, also compatible with C++, and has a separate Java interface (Jemboss)
Neural branch predictor for the Rice Simulator for ILP Multiprocessors (RSIM)
Ocotillo Pseudo-Random Number Generator -- a cryptographically secure PRNG for Unix platforms that do not have a /dev/urandom.
QuickMake is a flexible compilation aid, based on the GNU "make" program. It was originally developed for building RAVL (Recognition And Vision Library), but it can be used for compiling any software project, however big or small.
Telluride is a Los Alamos National Laboratory project for simulation of metal casting and welding - free-surface incompressible flow with heat transfer (conductive, convective, and radiative), phase change (melting and solidification), and other physics.
The IRIX Software Project is an initiative to port open-source software to the IRIX operating system running on Silicon Graphics workstations. It is also a goal to foster development of new software which makes full use of SGI's APIs.
VAPOR is the Visualization and Analysis Platform for Ocean, atmosphere, and solar Research
The X-Extensions for Python are a set of extension modules written in C and Python which provide access to various standard X libraries to Python programs. The X libraries that are thus made accessible include Xt, Xaw, Xm and more.