Finesse is a numeric simulation for laser interferometers using the frequency domain and Hermite-Gauss modes. It is easy to use for students. For basic use, including graphical output, no commercial software is required. The implemented physics are well documented in a 180-page manual. Simple examples are provided. Finesse can be used to compute a great variety of interferometer signals for control systems, including longitudinal control, alignment control, and thermal compensation.

Fimex is a the File Interpolation, Manipulation, and EXtraction library for gridded geospatial data. It converts between different, extensible data formats (currently netcdf, NcML, grib1/2, metgm, wdb, and felt). It enables you to change the projection and interpolation of scalar and vector grids. It makes it possible to subset the gridded data and to extract only parts of the files. For simple usage, Fimex also comes with the command line program fimex.

Madagascar is a software package for multidimensional data analysis and reproducible computational experiments. Its mission is to provide a convenient and powerful environment and a convenient technology transfer tool for researchers working with digital image and data processing in geophysics and related fields. Technology developed using the Madagascar project management system is transferred in the form of recorded processing histories, which become "computational recipes" to be verified, exchanged, and modified by users of the system.

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.

SCaVis is an environment for scientific computation, data analysis, and data visualization designed for scientists, engineers, and students. The program can be used for function and data plotting in 2D and 3D, histograms, statistical analysis, and symbolic calculations using the Matlab/Octave high-level interpreted language.

FísicaLab is an educational application to solve physics problems. The problems are set up by adding elements from the palette to a chalkboard and entering the data for each element. The elements are objects such as blocks, pulleys, motors, and forces. It can use the SI and English unit systems, scientific notation, and many conversion factors. The types of problems that can be solved are kinematics of particles (including circular motion), static analysis of particles and rigid bodies in 2D, dynamic analysis of particles in 2D (excluding the dynamics of circular motion), heat, calorimetry, ideal gas, and expansion. The static and dynamic problems are entered by constructing the free body diagrams of the objects.

iNA is a computational tool for quantitative analysis of fluctuations in biochemical reaction networks. Such fluctuations, also known as intrinsic noise, arise due to the stochastic nature of chemical reactions and cannot be ignored for when some molecules are present only in very low copy numbers as is the case in living cells. The SBML-based software computes statistical measures such as means and standard deviations of concentrations within a given accuracy using the analytical system size expansion. The result of iNA’s analysis can be tested against the computationally much more expensive stochastic simulation algorithm.

The mctdhtools project aims to provide a set of routines for easily reading and manipulating the output of the Heidelberg MCTDH code. Its goal is to allow a new user to quickly get started with writing custom analysis programs, and to allow more experienced users to write small, clean, and testable analysis programs, something that seems incompatible with the Fortran-77 code of the Heidelberg MCTDH package.

xylib is a portable C++ library for reading files that contain x-y data from powder diffraction, spectroscopy, or other experimental methods. Supported formats include plain text (CSV or TSV), Crystallographic Information File for Powder Diffraction (pdCIF), Siemens/Bruker UXD, Siemens/Bruker RAW v1/2/3, Philips UDF, Philips RD (raw scan) V3, Rigaku DAT, Sietronics Sieray CPI, DBWS/DMPLOT data file, Canberra MCA, XFIT/Koalariet XDD, RIET7/LHPM/CSRIET/ILL_D1A5/PSI_DMC DAT, Vamas ISO14976, and Princeton Instruments WinSpec SPE.