linux// software science

• 42 of the Best Free Linux Scientific Software - A compilation of the more notable Linux scientific software organized into broad subject categories. Each entry has a summary, license information, developer list, system requirements, and a link to the homepage. Last updated 2009-08-10.
• Biggles - A Python module for creating publication-quality 2D scientific plots.
• Bioinformatics.Org: Welcome - International organization which promotes freedom and openness in the field of bioinformatics.
• Calc - C-style Arbitrary Precision Calculator - An interactive calculator which provides for easy, large numeric calculations, but which also can be easily programmed for difficult or long calculations. Latest stable release is 2.12.4.0, 2008-10-24.
• Calcoo - A cross-platform RPN and algebraic scientific calculator. Latest stable release is 1.3.18, 2007-08-18.
• Celestia - Cross-platform planetarium and space simulation software with a database of 100,000+ stars, and a catalogue of more than 100 objects in the solar system. Latest release is 1.6.0, 2009-07-09.
• DINO Homepage - A real-time 3D visualization program for structural biology data.
• Dr Geo - Geometry Exploration Observatory - Interactive geometry software. Site also available in French and Italian. Latest release is 10.12, 2010-11-20.
• EMAN Home Page - A scientific image processing suite with Python language bindings. Latest stable release is 1.9, 2009-02-11.
• Ensembl Genome Browser - Publicly-available database of genomic information and a collection of open source tools used for analyzing genomic data from other public databases.
• Eukleides - Euclidean geometry drawing language for Linux. It can handle basic types of data including: numbers and strings, as well as geometric types of data: points, vectors, sets (of points), lines, circles, and conics. Latest release is 1.5.4, 2010-04-26.
• Flounder - A quick way to visualize regularly spaced 4D data, i.e., a data set that is a function of x, y, z, and time. Latest version is 0.40, 2003-01-14.
• Folding@home: Distributed Computing - The goal of this project to understand protein folding, misfolding, and related diseases. Multilingual site.
• Free Mag 7 Star Charts - A downloadable set of high-quality star charts for stars to 7.25 magnitude; licensed under the Creative Commons License.
• GAMGI - General Atomistic Modelling Graphic Interface - A tool for visualizing atomic structures, such as molecules, liquids, crystals.
• GMT - The Generic Mapping Tools - An open source collection of ~60 tools for manipulating geographic and Cartesian data sets (including filtering, trend fitting, gridding, projecting, etc.) and producing Encapsulated PostScript File (EPS) illustrations ranging from simple x-y plots via contour maps to artificially illuminated surfaces and 3-D perspective views. Latest release is 4.4.0, 2009-02-15.
• GNU/Linux Aviation HOWTO; Flying with GNU/Linux - This document provides pointers to software packages that run under GNU/Linux and are useful to pilots (private, commercial or military), airlines, airports or anyone else in the aeronautical domain. (2006) N.B. Some links in the document no longer work, but most of the information is still OK nonetheless. (2009)
• Genius Math tool and the GEL Language - Genius is a general purpose calculator program that is useful both as a simple calculator and as a research or educational tool. Latest release is 1.0.9, 2009-12-23.
• GeoGebra - A cross-platform, interactive, mathematics software that joins geometry, algebra and calculus. Primarily used for education in secondary schools. Internationalization is excellent with 40+ languages available. Latest stable release is 3.2.44.0, 2010-07-25.
• Geometria - A graphic interface for creating and solving problems in 3D geometry. It comes with excellent documentation and an extensive repository of sample figures, problems, and solutions making it an excellent choice for teachers. Also available in French, Polish, Portuguese, Romanian, Russian, and Spanish. Latest release is 3.1, 2010-11-02.
• Ghemical - Molecular Modelling Package - A GPLed, computational chemistry application. Latest release is 2.12, 2007-09-21.
• Gmsh: a three-dimensional finite element mesh generator with built-in pre- and post-processing facilities - An automatic 3D finite element grid generator with a build-in CAD engine and post-processor. Latest release is 2.3.1, 2009-03-18.
• Gnuplot.py - A Python interface to Gnuplot. Latest stable version is 1.8, 2008-05-02. N.B. Gnuplot has a non-free license.
• Grace - A WYSIWYG 2D plotting tool for the X Window System and M*tif. Latest release is 5.1.22, 2008-05-21.
• GraphThing - A tool to create, manipulate and study graphs (mathematical objects). Supports the following languages: in Catalan, English, German, Italian, Spanish, Swedish Chef.
• Grig - A simple, generic Ham Radio control (CAT) program based on the Ham Radio Control Libraries (Hamlib) with the same graphical user interface regardless of which radio is being controlled.
• Homepage - www.linuxastronomy.org - Collaboration between volunteers, teenagers, and astronomers. Projects use Linux and open source software.
• I, Librarian - Scientific PDF Article Manager - A GPLed software application that builds Web-based annotated libraries of scientific PDF articles (up to a 100,000 fully annotated PDF files can be accomodated). This tool is a great boon to researchers who need to collect, organize, and annotate bibliographic references.
• INDI - Instrument-Neutral Distributed Interface - An instrument-neutral distributed interface control protocol that provides backend driver support and automation for a wide range of astronomical devices including telescopes and CCDs. Latest stable release is 0.5, 2007-05-04.
• IRAF (Image Reduction and Analysis Facility) Project Home Page - A general purpose software system for the reduction and analysis of astronomical data.
• KFLog Portal - A KDE suite of open source flight planning and analysis programs for gliders.
• KSEG - Simulator of Euclidean Geometry - A free (GPL) interactive geometry program for exploring Euclidean geometry. It runs on UNIX/Linux-based platforms. Excellent multilingual support - available in 15+ languages. Latest release is 0.403, 2006-02-03.
• Kig - An application for interactive geometric construction, allowing students to draw and explore mathematical figures and concepts using the computer. Kig is part of the KDE 4 education module
• LabPlot Homepage - A 2D/3D data and functions plotting and visualization program. Also available in German.
• Libre Software Engineering - Free/Libre/Open Source software engineering research site.
• Linux Astronomy HOWTO - Tips and resources to utilize Linux solutions in Astronomy. (2007)
• Linux4Chemistry - Linux Software for Chemistry - A searchable database of Linux chemistry software.
• MIT Photonic-Bands Home Page - The MIT Photonic-Bands (MPB) package is a free program for computing the band structures (dispersion relations) and electromagnetic modes of periodic dielectric structures, on both serial and parallel computers. Latest release is 1.4.2, 2003-03-03.
• MathGL - Library for Scientific Graphics - A cross-platform, scientific graphics plotting library.
• Mathomatic Home Page - A small, portable Computer Algebra System (CAS) written entirely in the C programming language. It is a console-mode application that does symbolic math and quick calculations in a standard and generalized way. Translated into Iranian, Italian, Russian, and Spanish. Latest release is 15.0.7, 2010-04-15.
• Matplotlib - A Matlab-style Python 2D plotting package. Latest stable release is 1.0.0, 2010-07-06.
• Maxima - A cross-platform application for the manipulation of symbolic and numerical expressions. It is a descendant of acsyma, the legendary computer algebra system developed in the late 1960s at the Massachusetts Institute of Technology. Also available in Russian and Spanish. Latest release is 5.20.1, 2009-12-14.
• Molecular Modelling Toolkit (MMTK) Home Page - A program library written in Python for molecular simulation applications. Latest stable release is 2.6.0, 2009-05-26.
• NCBI BLAST Home Page - BLAST (Basic Local Alignment Search Tool) is one of the most popular open source software tool in bioinformatics.
• Nightfall Eclipsing Binary Star Program - An astronomy application for fun, education, and science. It can produce animated views of eclipsing binary stars, calculate synthetic lightcurves and radial velocity curves, and eventually determine the best-fit model for a given set of observational data of an eclipsing binary star system. It is, however, not able to fry your breakfast egg on your harddisk. :-( Site also available in German. Latest release is 1.70,2009-06-02.
• NumExp - Mathematical Computation Environment - A family of open source applications for numeric computation and 2D plot rendering. A GNOME application. Latest release is 0.17.1, 2009-05-08.
• OSGeo | Your Open Source Compass - The Open Source Geospatial Foundation hosts and supports high-quality open source geospatial software projects related to remote sensing, GIS, mapping and advanced image processing.
• OSSIM - A high-performance open source software system for remote sensing, geographical information systems (GIS), image processing, and photogrammetry.
• OWW - One-Wire Weather Interface - A server and client for Dallas Semiconductor / AAG 1-wire weather station kits.
• Open Visualization Data Explorer - Open source visualization software package based on IBM's Visualization Data Explorer. Latest release is 4.4.4, 2006-08-30. N.B.: Users must fill out a personal information form to obtain the source code. This software is licensed under the OSI-approved IBM Public License, which is incompatible with the GPL license.
• OpenInformatics.org Homepage - Making scientists more aware of open source software and the benefits to them. Site also contains a science-related software resource list.
• PHP Weather - An application to display the current, local weather on your webpage; available in multiple languages. Current stable release is: 2.2.2, 2004-06-24.
• PLplot Home Page - PLplot is a cross-platform, scientific graphics plotting library. It can be used from within compiled languages such as C, C++, FORTRAN and Java, and interactively from interpreted languages such as Octave, Python, Perl and Tcl. Latest development release is 5.9.7, 2010-10-10.
• Partiview - An industrial strength, interactive, mono- or stereoscopic viewer for 4-dimensional datasets. This application is used by astronomers for interpreting and analyzing large collections of data on the universe.
• Ploticus - Welcome - A cross-platform, non-interactive software package for producing plots, charts, and graphics from data. Latest stable release is 2.4.0, 2008-01-15.
• QtiPlot - A cross-platform data analysis and scientific plotting application. It is similar to Origin or SigmaPlot (both proprietary software applications). Latest stable release is 0.9.7.10, 2009-10-08.
• RLplot Home Page - A cross-platform scientific plotting package.
• SAGE: Open Source Mathematics Software - A Free and Open Source software application for studying a huge range of mathematics, including algebra, calculus, elementary to advanced number theory, cryptography, numerical computation, graph theory, and exact linear algebra. It also has interfaces to non-free software (e.g., MAGMA, Maple, Mathematica).
• SINGULAR - A computer algebra system for polynomial computations with special emphasis on the needs of commutative algebra, algebraic geometry, and singularity theory. This project has a long history dating back to 1987. Latest release is 3.1.2, 2010-10-19.
• Sailcut CAD - A cross-platform sail plotting package for designing and developing boat sails into flat panels.
• SciGraphica Homepage - Scientific Graphics and Data Manipulation - A scientific data visualization and analysis application, supplying many of the basic plotting features for 2D and 3D charts. Latest release is 2.1.1, 2005-06-24.
• SciPy - Scientific tools for Python - Includes modules for graphics and plotting, optimization, integration, special functions, signal and image processing.
• Science Commons - The purpose of this organization is to encourage scientific innovation by promoting legal and technical mechanisms that remove barriers to accessing and sharing scientific information.
• ScientificPython - A collection of Python modules that are useful for scientific computing. Latest stable release is 2.8, 2008-10-28.
• Scilab Home Page - Scientific software package for numerical computations providing a powerful open computing environment for engineering and scientific application. N.B.: For versions prior to 5.0 the license is non-free (free for non-commercial use and commercial use but code cannot be modified). For later releases the license is GPL-compatible. Latest stable release is 5.2.0, 2009-12-17.
• SkyView Virtual Observatory - A virtual observatory on the Net generating images of any part of the sky at wavelengths in all regimes from Radio to Gamma-Ray.
• SquidBee - A project that uses an open hardware design as well as open source software as a platform for wireless remote control and sensing.
• Stellarium Astronomy Software - A cross-platform desktop planetarium, which renders 3D photo-realistic skies in real time with OpenGL; its ease-of-use is a big advantage. Latest release is 0.10.2, 2009-03-09.
• The Comprehensive R Archive Network (CRAN) - A network of ftp and web servers around the world that store identical, up-to-date, versions of code and documentation for R.
• The Gerris Flow Solver - This is a program for the solution of the partial differential equations describing fluid flow.
• The KDE Edutainment Project - KStars - A desktop planetarium for KDE. It provides an accurate graphical simulation of the night sky, from any location on Earth, at any date and time. The display includes ~100 million stars, 13,000 deep-sky objects, all 8 planets, the Sun and Moon, and thousands of comets and asteroids. Latest release is 1.5, 2009-01-29.
• The OpenScience Project - Dedicated to writing and releasing free and Open Source scientific software. Software database organized by subject categories.
• The R Project for Statistical Computing - One of the best statistics software packages for Linux.
• The Random Factory -- Scientific Software for Linux - Linux for Astronomy, Biotechnology, and Chemistry with comprehensive collections of software on CD.
• The gretl Home Page -- Gnu Regression, Econometrics and Time-series Library - A cross-platform software package for econometric analysis. Runs on GNOME 1.4 and 2.0. An easy intuitive interface (now in French, Italian, Spanish, Polish, German, Basque, Portuguese, Russian, Turkish and Czech as well as English). Latest stable release is 1.8.7, 2010-01-24.
• UDAV - Universal data Array Visualization - A cross-platform program for data arrays visualization based on the MathGL library.
• VMD - Visual Molecular Dynamics
• Welcome to Euler - A mathematical program, with advanced graphic capabilities, that interactively computes real and complex numbers and matrices.
• Welcome to GNU TeXmacs - A free scientific text editor, which was both inspired by TeX and GNU Emacs. Latest stable release is 1.07, 2008-10-15.
• Welcome to the Kemistry Homepage! - A collection of chemistry related software for the KDE Desktop Environment. Latest release is 0.7, 2003-01-24.
• X10 Ephem - This code computes sunrise and sunset times.
• XTide: Harmonic Tide Clock and Tide Predictor - XTide is a package that provides tide and current predictions in a wide variety of formats. Graphs, text listings, and calendars can be generated, or a tide clock can be provided on the desktop. Latest release is 2.9.4, 2007-09-03.
• XaoS - A fast interactive real-time fractal zoomer and morpher.
• Xplanet - Xplanet was inspired by Xearth, which renders an image of the earth into the X root window. Xplanet can also render images of the other planets and some satellites. Latest stable release is 1.2.1, 2009-04-18.
• Xplns - reproduces real starry sky
• Yacas - Yet Another Computer Algebra System - An easy-to-use general purpose computer algebra system. It uses its own programming language designed for symbolic as well as arbitrary-precision numerical computations. Latest stable release is 1.2.0, 2007-09-21.
• Yorick: An Interpreted Scientific Programming Language - An interpreted programming language for scientific simulations or calculations, postprocessing or steering large simulation codes, interactive scientific graphics, and reading, writing, or translating large files of numbers.
• Yplot - A Yorick interface to PLplo