SDB:List of Scientific Applications

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This is a list of Scientific applications, grouped by discipline, their licenses and links to their project websites

Chemistry and Biology

  • AMMP
Description: AMMP is a modern full-featured molecular mechanics, dynamics and modeling program.
License: GPL
Site: http://www.cs.gsu.edu/~cscrwh/ammp/ammp.html
  • Ascend
Description: ASCEND is an open source software system for aiding technical people to set up and solve small to very large models described by using equations.
License: GPL
Site: http://ascendwiki.cheme.cmu.edu/Main_Page
  • Avogadro
Description: Avogadro is an advanced molecular editor. It offers flexible rendering and a powerful plugin architecture.
License: GPL v2
Site: http://avogadro.sourceforge.net/wiki/Main_Page
  • BioJava
Description: BioJava is an open-source project dedicated to providing a Java framework for processing biological data.
License: GPL
Site: http://biojava.org/wiki/Main_Page
  • fftw
Description: Subroutine library for computing the Discrete Fourier Transform
License: GPL
Site: http://directory.fsf.org/fftw.html
  • GAMGI
Description: GAMGI provides a free package to construct, view and analyse atomic structures.
License: GPL
Site: http://www.gamgi.org/
  • GChemPaing
Description: 2D chemical structures editor for the Gnome desktop.
License: GPL
Site:http://www.gnomefiles.org/app.php/GChemPaint
  • gElemental
Description: gElemental is a periodic table viewer that provides detailed information on the chemical elements.
Licence: GPL
Site: http://www.gnomefiles.org/app.php/gElemental
  • ghemical
Description: Ghemical is computational chemistry package.
License: GPL
Site: http://www.uku.fi/~thassine/projects/ghemical/
  • GLPK (GNU Linear Programming Kit)
Description: The GLPK (GNU Linear Programming Kit) package is intended for solving large-scale linear programming (LP), mixed integer programming (MIP), and other related problems. 
License: GPL
Site: http://www.gnu.org/software/glpk/glpk.html
  • GSL - Gnu Scientific Library
Description: The GNU Scientific Library (GSL) is a numerical library for C and C++ programmers.
License: GPL
Site: http://www.gnu.org/software/gsl/
  • MPQC
Description: The Massively Parallel Quantum Chemistry program, MPQC, computes properties of atoms and molecules from first principles using the time independent Schroedinger equation.
License: GPL
Site: http://sourceforge.net/projects/mpqc/

Data treatment and plotting

  • g3data
Description: g3data is used for extracting data from graphs.
License: GPL
Site: http://www.gnomefiles.org/app.php/g3data
  • Grace (xmgrace)
Description: Grace is a WYSIWYG 2D plotting tool for the X Window System and M*tif. It produces print quality plots.
License: GPL
Site: http://plasma-gate.weizmann.ac.il/Grace/
  • LabPlot
Description: Data analysis and visualisation.
License: GPL
Site: http://labplot.sourceforge.net/
  • QtiPlot
Description: Data analysis and scientific plotting. Free clone of Origin.
License: GPL
Site: http://www.kde-apps.org/content/show.php/QtiPlot?content=14826

Electronics

  • KTechlab
Description: KTechlab is an IDE for electronic circuits and microcontrollers.
License: GPL
Site: http://www.kde-apps.org/content/show.php/KTechlab?content=18943
  • LedaX
Description: LedaX is short for (LinuX + EDA (Electronic Design Automation).
License: GPL
Site: http://yaeda.org/
  • Piklab
Description: Piklab is an integrated development environment (IDE) for applications based on Microchip PIC and dsPIC microcontrollers.
License: GPL
Site: http://piklab.sourceforge.net

Geography

  • GRASS GIS
Description: Geographic Resources Analysis Support System.
License: GPL
Site: http://grass.itc.it/

Mathematics

  • MAXIMA
 Description: Maxima is a fairly complete computer algebra system written in lisp with an emphasis on symbolic computation. It is based on DOE-MACSYMA and licensed under the GPL. 
 License: GPL
 Site: http://sourceforge.net/projects/maxima/
  • SINGULAR
Description: A Computer Algebra System for polynomial computations with special emphasis on the needs of commutative algebra, algebraic geometry, and singularity theory.
License: GPL
Site: http://www.singular.uni-kl.de/index.html
  • Yacas
Description: YACAS is an easy to use, general purpose Computer Algebra System, a program for symbolic manipulation of mathematical expressions.
License: GPL
Site: http://yacas.sourceforge.net/yacas.html
  • Euler
Description: Euler is a powerful numerical laboratory with a programming language.
License: GPL
Site: http://mathsrv.ku-eichstaett.de/MGF/homes/grothmann/euler/euler.html
  • IT++
Description: IT++ is a C++ library of mathematical, signal processing and communication system routines/functions.
License: GPL
Site: http://sourceforge.net/projects/itpp/
  • ATLAS
Description: ATLAS (Automatically Tuned Linear Algebra Software) provides highly optimized Linear Algebra kernels for arbitrary cache-based architectures.
License: GPL
Site: http://sourceforge.net/projects/math-atlas/
  • Octave
Description: GNU Octave is a high-level language, primarily intended for numerical computations.
License: GPL
Site: http://www.gnu.org/software/octave/
  • TBCI NumLib
 Description: A templated library of numerical base classes which implement basic data structures (vectors, tensors, ...) and their operations, together with some linear solver.
 License: GPL 2
 Site: http://plasimo.phys.tue.nl/TBCI/
  • TeLa
Description: Tela (the TEnsor LAnguage) is a numerical computing environment mainly targeted for numerical simulation pre- and postprocessing work.
License: GPL
Site: http://www.ava.fmi.fi/prog/tela.html
  • Scilab
Description: The open source platform for numerical computation.
License: Scilab license – Not compatible with GPL
Site: http://www.scilab.org

Medicine

  • Aeskulap
Description: Aeskulap is a medical image viewer and DICOM network client.
License: GPL
Site: http://aeskulap.nongnu.org/
  • Gnaural
Description: An opensource binaural-beat generator
License: GPL
Site: http://gnaural.sourceforge.net/
  • ICD Browser
Description: This program is an easy to use browser with search capability for the International Classification of Diseases (ICD) codes.
License: GPL
Site: http://www.aperitto.com/content/view/20/41/
  • Klusters
Description: Klusters is a powerful and easy-to-use graphical application for spike sorting of extracellular neuronal recordings.
License: GPL
Site: http://klusters.sourceforge.net/
  • OpenVista
Description: A cross platform client application for the Veteran Affairs' VistA system and systems derived from VistA, like OpenVista Server.
License: Mixed (see the site)
Site: http://medsphere.org/openvista_cis.html

Statistics

  • R
Description: R is a free software environment for statistical computing and graphics.
License: GPL
Site: http://www.r-project.org/

Others

  • Code-aster
Description: A powerful multiphysics code.
License: GPL
Site: http://www.code-aster.org/
  • OpenCASCADE
Description: Open CASCADE Technology is software development platform freely available in open source.
License: GPL
Site: http://www.opencascade.org/
  • OpenFOAM
Description: The open source CFD toolbox.
License: GPL
Site: http://www.openfoam.org
  • SALOME
Description: SALOME is a free software that provides a generic platform for Pre and Post-Processing for numerical simulation.
License: LGPL
Site: http://www.salome-platform.org/home/presentation/overview/
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