Difference between revisions of "List of applications/Science"

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== Science ==
 
== Science ==
 
{{Note|1=For possibly more up to date selection of scientific applications, try checking the [https://aur.archlinux.org/packages.php?O=0&K=&do_Search=Go&detail=1&C=15&SeB=nd&SB=n&SO=a&PP=25 AUR 'science' category]}}
 
{{Note|1=For possibly more up to date selection of scientific applications, try checking the [https://aur.archlinux.org/packages.php?O=0&K=&do_Search=Go&detail=1&C=15&SeB=nd&SB=n&SO=a&PP=25 AUR 'science' category]}}
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=== Scientific Documents ===
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With [[LaTeX]], creation of any scientific document, article, journal, etc. is made commonplace. Here are two examples of frontends for LaTeX.
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{{Wikipedia|Comparison of TeX editors}}
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* {{App|TeXMacs|wysiwyw (what you see is what you want) editing platform with special features for scientists.|http://www.texmacs.org/|{{Pkg|texmacs}}}}
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* {{App|LyX|LyX is a document processor that encourages an approach to writing based on the structure of your documents (WYSIWYM) and not simply their appearance (WYSIWYG).|http://www.lyx.org/|{{Pkg|lyx}}}}
  
 
=== Mathematics ===
 
=== Mathematics ===

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Template:Common Applications navigation

Science

Note: For possibly more up to date selection of scientific applications, try checking the AUR 'science' category

Scientific Documents

With LaTeX, creation of any scientific document, article, journal, etc. is made commonplace. Here are two examples of frontends for LaTeX.

Template:Wikipedia

  • TeXMacs — wysiwyw (what you see is what you want) editing platform with special features for scientists.
http://www.texmacs.org/ || texmacs
  • LyX — LyX is a document processor that encourages an approach to writing based on the structure of your documents (WYSIWYM) and not simply their appearance (WYSIWYG).
http://www.lyx.org/ || lyx

Mathematics

Calculator

  • Speedcrunch — feature-rich scientific calculator
http://speedcrunch.org || speedcrunchAUR
  • ExtCalc — feature-rich scientific calculator
http://extcalc-linux.sourceforge.net/ || extcalcAUR
  • KAlgebra — calculator and 3D plot
http://kalgebra.berlios.de/ || kdeedu-kalgebra
  • Qalculate — calculator and equation solver with fault-tolerant parsing. Recognises constants and units
http://qalculate.sourceforge.net/ || libqalculate

Computer Algebra System

http://maxima.sourceforge.net/ || maxima
  • Sage — "Maple/Mathematica"-like program in python
http://www.sagemath.org/ || sage-mathematicsAUR

Scientific or Technical Computing

http://www.gnu.org/software/octave/ || octave
  • Freemat — "Matlab"-like program
http://freemat.sourceforge.net/ || freemat
  • Scilab — "Matlab"-like program
http://www.scilab.org/ || scilabAUR
  • Euler — mathematical programming environment like MatLab or Octave
http://euler.sourceforge.net || EulerAUR
  • Englab — cross-compile mathematical platform with a C like syntax
http://englab.bugfest.net || englabAUR
  • Pylab — python modules for scientific calculations
http://www.scipy.org/PyLab || python2-matplotlib

Statistics

  • PSPP — free SPSS implementation (Graphical:PSPPire)
http://www.gnu.org/software/pspp/ || psppAUR
  • R — software environment for statistical computing and graphics
http://cran.r-project.org/ || r
  • RKWard — frontend for the statistical language R
http://rkward.sourceforge.net/ || rkwardAUR
  • JAGS — is Just Another Gibbs Sampler. A cross-platform program for analysis of Bayesian hierarchical models using Markov Chain Monte Carlo (MCMC) simulation
http://mcmc-jags.sourceforge.net/ || jagsAUR

Data Evaluation

  • Fityk — non-linear fitting of curves
http://www.unipress.waw.pl/fityk/ || fitykAUR
http://soft.proindependent.com/qtiplot.html || qtiplot
  • SciDavis — similar to QtiPlot
http://scidavis.sourceforge.net/ || scidavisAUR
  • LabPlot — comparable to "OriginLab"
http://labplot.sourceforge.net/ || labplot2AUR
  • ROOT — data analysis program and library (originally for particle physics)
http://root.cern.ch/drupal/ || root
  • GnuPlot — commanine based plotting program
http://www.gnuplot.info/ || gnuplot
  • XmGrace — plotting program with GUI
http://plasma-gate.weizmann.ac.il/Grace/ || grace
  • Extrema — visualization and data analysis tool.(no longer in active development)
http://sourceforge.net/projects/extrema || extremaAUR

See also Common Applications#Spreadsheets

Chemistry and Biology

Computational Biology

  • Biopython — Python package with tools for computational biology.
http://biopython.org/wiki/Biopython || biopythonAUR

Molecule Viewer

  • Avogadro — edit and view 3D molecule structures (also .pdb) and simulate
http://avogadro.openmolecules.net/wiki/Main_Page || avogadro
  • Ballview — standalone molecular modeling and visualization application
http://www.ballview.org/ || ballAUR
  • Ghemical — edit and view 3D molecule structures (also .pdb) and simulate
http://bioinformatics.org/ghemical/ghemical/index.html || ghemical
  • Rasmol — view 3D molecule structures
http://www.rasmol.org/ || rasmolAUR
  • Pymol — view 3D molecule structures
http://pymol.sourceforge.net/ || pymolAUR

Molecule Drawing

  • BKchem — practical and goodlooking skeletal formula molecule drawing program
http://bkchem.zirael.org/ || bkchemAUR
  • XDrawChem — extensive skeletal formula molecule drawing program (incl. spectroscopy prediction)
http://xdrawchem.sourceforge.net/ || xdrawchemAUR
  • EasyChem — simple skeletal formula molecule drawing program
http://easychem.sourceforge.net/ || easychemAUR
  • Chemtool — skeletal formula molecule drawing program
http://ruby.chemie.uni-freiburg.de/~martin/chemtool/chemtool.html || chemtool
  • Gabedit — graphical user interface to computational chemistry packages like Gamess-US, Gaussian, Molcas, Molpro, MPQC, OpenMopac, Orca, PCGamess and hem
http://gabedit.sourceforge.net/ || gabeditAUR

Periodic Table

  • Kalzium — periodic table of the elements with molecule editor and equation solver from the KDE project
http://edu.kde.org/kalzium/ || kdeedu-kalzium
  • gElemental — periodic table of the elements and additional information
http://freshmeat.net/projects/gelemental || gelementalAUR

Biochemistry

  • Bioclipse — Aims to be a complete biochemistry office suite.
http://www.bioclipse.net/ || not packaged? search in AUR

Molecular Modeling

  • GROMACS — versatile package to perform molecular dynamics, i.e. simulate the Newtonian equations of motion for systems with hundreds to millions of particles
http://www.gromacs.org || gromacsAUR
  • Quantum Espresso — integrated suite of computer codes for electronic-structure calculations and materials modeling at the nanoscale. It is based on density-functional theory, plane waves, and pseudopotentials (both norm-conserving and ultrasoft)
http://www.quantum-espresso.org/ || quantum-espressoAUR

Image manipulation

  • ImageJ — Java-based image processing and analysing program, that provides extensibility via plugins and macros. Widely used in microscopy (e.g. for cell counting).
http://rsb.info.nih.gov/ij || imagejAUR

Astronomy

  • Cartes Du Ciel — aka 'Skychart' - Planetarium,Sky mapping & Telescope control
http://www.ap-i.net/skychart/start/ || skychartAUR
http://www.shatters.net/celestia/ || celestia
http://www.clearskyinstitute.com/xephem/xephem.html || xephemAUR
  • KStars — KDE desktop planetarium
http://edu.kde.org/kstars/ || kdeedu-kstars
  • StarPlot — 3D starchart viewer
http://starplot.org/ || starplotAUR
http://www.stellarium.org/ || stellarium

Physics

Electronics

  • gEDA — electronic design automation tools
http://www.gpleda.org || geda-gaf
  • Qucs — electronic circuit simulation
http://qucs.sourceforge.net/ || qucs
  • Oregano — electronic circuit simulation
https://gitorious.org/oregano || oreganoAUR
  • QElectroTech — draw advanced electrical circuits
http://qelectrotech.org/ || qelectrotechAUR
  • KiCAD — design schematics for printed circuit boards
http://kicad.sourceforge.net/wiki/index.php/Main_Page || kicadAUR
  • KSimus — logical circuits simulation
http://ksimus.berlios.de/ || ksimusAUR
  • KLogic — logical circuits simulation
http://www.a-rostin.de/ || klogicAUR

Physics Simulation

  • Aster — simulation for civil and structural engineering
http://www.code-aster.org || asterAUR
  • Step — physics Simulation Educative physics simulation (KDE)
http://edu.kde.org/step/ || kdeedu-step

Unit Conversion

  • Convertall — convert between different physical units
http://convertall.bellz.org/ || convertallAUR
  • Gonvert — convert between different physical units
http://www.unihedron.com/projects/gonvert/ || gonvertAUR
  • Units — CLI Unit converter and calculator
http://www.gnu.org/s/units/ || units