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.
SHOGUN is a machine learning toolbox whose focus is on large scale kernel methods and especially on Support Vector Machines (SVM). It provides a generic SVM object interfacing to several different SVM implementations, all making use of the same underlying, efficient kernel implementations. Apart from SVMs and regression, SHOGUN also features a number of linear methods like Linear Discriminant Analysis (LDA), Linear Programming Machine (LPM), (Kernel) Perceptrons, and algorithms to train hidden Markov models. SHOGUN can be used from within C++, Matlab, R, Octave, and Python.
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.
PBZIP2 is a parallel implementation of the bzip2 block-sorting file compressor that uses pthreads and achieves near-linear speedup on SMP machines. The output of this version is fully compatible with bzip2 1.0.2 or newer (ie: anything compressed with PBZIP2 can be decompressed with bzip2).
Block Locally Optimal Preconditioned Eigenvalue Xolvers (BLOPEX) is a package, written in C and MATLAB, that includes an eigensolver implemented with the Locally Optimal Block Preconditioned Conjugate Gradient Method (LOBPCG). BLOPEX supports parallel MPI-based computations. BLOPEX is incorporated in the HYPRE package and is available as an external block to the PETSc package. Its main features are a matrix-free iterative method for computing several extreme eigenpairs of symmetric positive generalized eigenproblems; a user-defined symmetric positive preconditioner; robustness with respect to random initial approximations, variable preconditioners, and ill-conditioning (up to 10^16) of the stiffness matrix; and apparently optimal convergence speed.
Open DESIRE is a modeling/simulation language for dynamic systems and neural networks, a runtime compiler, and an experiment-protocol script for simulation studies. It supports up to 40,000 differential equations or neural networks, in scalar and/or vector form. It also supports very fast Monte Carlo studies and complex frequency-response plots.
The GOBLIN project consists of a C++ class library for a large series of graph optimization problems, GOSH, an extension of the Tcl/Tk scripting language to graph objects, and GOBLET, a graphical user interface to the library functions. GOBLET includes a graph editor and supports the standard graph layout methods.