# List of applications/Science (正體中文)

< List of applications

## 科學

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

### 科學文件

參閱主文：List of applications/Documents (正體中文)#科學文件.

### 數學

#### 計算機

See also Wikipedia:Comparison of software calculators.

- bc — Arbitrary precision calculator language.

  http://www.gnu.org/software/bc/ || bc

- calc — Arbitrary precision console calculator.

  http://www.isthe.com/chongo/tech/comp/calc/ || calc

- Extcalc — Qt-based scientfic graphical calculator.

  http://extcalc-linux.sourceforge.net/ || extcalcAUR

- galculator — GTK+ based scientific calculator.

  http://galculator.sourceforge.net/ || galculator

- GCalctool — Scientific calculator included in the GNOME desktop.

  http://www.gnome.org || gcalctool-oldguiAUR

- KAlgebra — Calculator and 3D plotter included in KDE EDU.

  http://www.kde.org/applications/education/kalgebra/ || kdeedu-kalgebra[broken link: replaced by kalgebra]

- KCalc — Scientific calculator included in the KDE desktop.

  http://kde.org/applications/utilities/kcalc/ || kdeutils-kcalc[broken link: replaced by kcalc]

- Qalculate — Calculator and equation solver with fault-tolerant parsing, constant recognition and units.

  http://qalculate.sourceforge.net/ || libqalculate

- SpeedCrunch — Fast, high precision and powerful cross-platform calculator.

  http://speedcrunch.org || speedcrunch

- xcalc — Scientific calculator for X with algebraic and reverse polish notation modes.

  http://xorg.freedesktop.org/ || xorg-xcalc

#### 電腦代數系統

See also Wikipedia:Comparison of computer algebra systems.

- Fermat — Computer algebra system that does arithmetic of arbitrarily long integers and fractions, multivariate polynomials, symbolic calculations, matrices over polynomial rings, graphics, and other numerical calculations.

  http://home.bway.net/lewis/ || fermatAUR[broken link: archived in aur-mirror]

- GAP — Computer algebra system for computational discrete algebra with particular emphasis on computational group theory.

  http://www.gap-system.org || gap-mathAUR[broken link: replaced by gap]

- Mathomatic — General purpose Computer Algebra System written in C.

  http://www.mathomatic.org/ || mathomatic

- Maxima — Maple/Mathematica-like program with a wxWidgets based frontend.

  http://maxima.sourceforge.net/ || maxima wxmaxima

- PARI/GP — Computer algebra system designed for fast computations in number theory.

  http://pari.math.u-bordeaux.fr/ || pari

- Xcas — User interface to Giac, a free, basic computer algebra system.

  http://www-fourier.ujf-grenoble.fr/~parisse/giac.html || xcas

#### 科學或技術性計算

See also Wikipedia:Comparison of numerical analysis software.

- EngLab — Cross-compile mathematical platform with a C like syntax.

  http://englab.bugfest.net || englabAUR

- Euler — Numerical application designed for higher level math such as calculus, optimization, and statistics that uses Maxima for symbolic operations.

  http://euler.sourceforge.net || eulerAUR[broken link: archived in aur-mirror]

- FreeMat — Matlab-like program that supports many of its functions and features a codeless interface to external C, C++, and Fortran code, further parallel distributed algorithm development (via MPI), and 3D visualization capabilities.

  http://freemat.sourceforge.net/ || freemat

- Octave — Matlab-like language and interface for numerical computations.

  http://www.gnu.org/software/octave/ || octave

- PyLab — Collection of Python modules (pyplot, numpy, etc.) used for scientific calculations.

  http://www.scipy.org/PyLab || python2-matplotlib

- Sage — Mathematics software system, that combines many existing open-source packages into a common Python interface. Alternative to Magma, Maple, Mathematica and Matlab.

  http://www.sagemath.org || sage-mathematics[broken link: replaced by sagemath]

- Scilab — Matlab alternative used for numerical computations. Its syntax is not equivalent to that of Matlab, but it can be easily converted.

  http://www.scilab.org/ || scilabAUR

#### 統計

See also Wikipedia:Comparison of statistical packages.

- JAGS (Just another Gibbs sampler) — Cross-platform program for analysis of Bayesian hierarchical models using Markov Chain Monte Carlo (MCMC) simulation.

  http://mcmc-jags.sourceforge.net/ || jagsAUR

- PSPP — Free SPSS implementation.

  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

#### 資料評估

See also Wikipedia:List of information graphics software.

- Extrema — Visualization and data analysis tool.

  http://sourceforge.net/projects/extrema || extremaAUR[broken link: archived in aur-mirror]

- Fityk — Curve fitting and data analysis application, predominantly used to fit analytical, bell-shaped functions to experimental data.

  http://fityk.nieto.pl/ || fitykAUR

- Gnuplot — Command-line program that can generate 2D and 3D plots of functions, data, and data fits.

  http://www.gnuplot.info/ || gnuplot

- Grace — WYSIWYG 2D graph plotting tool.

  http://plasma-gate.weizmann.ac.il/Grace/ || grace qtgraceAUR gracegtkAUR

- LabPlot — Free software data analysis and visualization application, similar to SciDAVis.

  http://labplot.sourceforge.net/ || labplot2AUR[broken link: archived in aur-mirror]

- QtiPlot — Platform-independent application used for interactive scientific graphing and data analysis, similar to the proprietary Origin or SigmaPlot.

  http://soft.proindependent.com/qtiplot.html || qtiplot

- ROOT — Data analysis program and library (originally for particle physics) developed by CERN.

  http://root.cern.ch/drupal/ || rootAUR

- SciDAVis — Fork of QtiPlot with the goal of being better documented and more user friendly.

  http://scidavis.sourceforge.net/ || scidavisAUR

See also List of applications#Spreadsheets

### 化學和生物學

#### 計算生物學和生物資訊學

See also Wikipedia:List of open source bioinformatics software.

- BALL (Biochemical Algorithms Library) — Application framework in C++ that provides an extensive set of data structures as well as classes for molecular nechanics, advanced solvation methods, comparison and analysis of protein structures, file import/export, and visualization.

  http://www.ball-project.org/ || ballAUR

- BioJava — Set of Java tools for computational biology, as well as bioinformatics.

  http://biojava.org/wiki/Main_Page || biojavaAUR

- Biopython — Python package with tools for computational biology, as well as bioinformatics.

  http://biopython.org/wiki/Biopython || python-biopython python2-biopython

- EMBOSS (European Molecular Biology Open Software Suite) — Open source software analysis package specially developed for the needs of the molecular biology and bioinformatics user community.

  http://emboss.sourceforge.net/ || embossAUR

- MEGA (Molecular Evolutionary Genetics Analysis) — Integrated tool for conducting automatic and manual sequence alignment, inferring phylogenetic trees, mining web-based databases, estimating rates of molecular evolution, inferring ancestral sequences, and testing evolutionary hypotheses.

  http://www.megasoftware.net/ || megaAUR[broken link: archived in aur-mirror]

- MUMmer — Bioinformatics software system for sequence alignment based on suffix trees.

  http://mummer.sourceforge.net/ || mummerAUR

- UGENE — Application that integrates dozens of well-known biological tools and algorithms, providing both graphical user and command-line interfaces.

  http://ugene.unipro.ru/ || ugeneAUR

#### 分子檢視

See also Wikipedia:List of molecular graphics systems.

- Avogadro — Editor, viewer and simulator for 3D molecule structures (also supports downloading files from the Protein Data Bank).

  http://avogadro.openmolecules.net/wiki/Main_Page || avogadro

- BALLView — Standalone molecular modeling and visualization application, part of the BALL framework.

  http://www.ballview.org/ || ballAUR

- Ghemical — Computational chemistry software package used to edit, view and simulate molecular structures.

  http://bioinformatics.org/ghemical/ghemical/index.html || ghemicalAUR

- PyMOL — Open-source molecular visualization system that can produce high quality 3D images of small molecules and biological macromolecules, such as proteins.

  http://pymol.org || pymol

- RasMol — Computer program written for molecular graphics visualization intended and used primarily for the depiction and exploration of biological macromolecule structures.

  http://www.rasmol.org/ || rasmolAUR[broken link: archived in aur-mirror]

#### 分子繪圖

- BKChem — Practical and goodlooking skeletal formula molecule drawing program.

  http://bkchem.zirael.org/ || bkchemAUR

- Chemtool — GTK+-based program for drawing chemical structural formulas.

  http://ruby.chemie.uni-freiburg.de/~martin/chemtool/chemtool.html || chemtool

- EasyChem — Simple skeletal formula molecule drawing program with a focus on producing press-quality figures.

  http://easychem.sourceforge.net/ || not packaged? search in AUR

- Gabedit — Graphical user interface to computational chemistry packages like GAMESS, Gaussian, MOLCAS, MOLPRO, MPQC, OpenMopac, Firefly (previously PC GAMESS) and Q-Chem.

  http://gabedit.sourceforge.net/ || gabeditAUR

- XDrawChem — Extensive skeletal formula molecule drawing program (includes spectroscopy prediction).

  http://xdrawchem.sourceforge.net/ || xdrawchemAUR[broken link: archived in aur-mirror]

#### 週期表

- gElemental — Periodic table of the elements with additional information.

  http://freshmeat.net/projects/gelemental || gelementalAUR

- Kalzium — Periodic table of the elements with molecule editor and equation solver from the KDE desktop.

  http://edu.kde.org/kalzium/ || kdeedu-kalzium

#### 生物化學

- Bioclipse — Java-based visual platform for biochemestry that uses the Eclipse Rich Client Platform (RCP).

  http://www.bioclipse.net/ || not packaged? search in AUR

#### 分子模型

- GROMACS (GROningen MAchine for Chemical Simulations) — 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 applications for electronic-structure calculations and materials modeling at nanoscale. It is based on density-functional theory, plane waves, and pseudopotentials (both norm-conserving and ultrasoft).

  http://www.quantum-espresso.org/ || quantum-espressoAUR

#### 圖像操作

- ImageJ — Java-based image processing and analysing program that provides extensibility via plugins and macros. It is widely used in microscopy (e.g. for cell counting).

  http://rsb.info.nih.gov/ij || imagejAUR

- Fiji — ImageJ distribution (and soon ImageJ2) with a lot of plugins organized into a coherent menu structure.

  http://fiji.sc || fiji-binaryAUR

### 天文學

- Celestia — 3D astronomy simulation program that allows users to travel through an extensive universe, modeled after reality, at any speed, in any direction and at any time in history.

  http://www.shatters.net/celestia/ || celestia

- GIMP Astronomy Plugins — Set of GIMP plugins for astronomical image processing.

  http://hennigbuam.de/georg/gimp.html || gimp-plugin-astronomyAUR

- GoQat — Camera acquisition software, especially for QSI cameras, that provides other features such as autoguiding, focusing help and others.

  http://canburytech.net/GoQat/ || goqatAUR

- KStars — Planetarium application that provides an accurate graphical simulation of the night sky, from any location on Earth, at any date and time. It is included in KDE Edu.

  http://edu.kde.org/kstars/ || kdeedu-kstars[broken link: replaced by kstars]

- Open PHD Guiding — Telescope autoguiding software based on the famous PHD Guiding.

  http://code.google.com/p/open-phd-guiding/ || open-phd-guiding-svnAUR[broken link: archived in aur-mirror]

- Qastrocam-g2 — Webcam acquisition software for planetary imaging.

  http://sourceforge.net/projects/qastrocam-g2/ || qastrocam-g2AUR

- Skychart / Cartes du Ciel — Planetarium that maps out and labels most of the constellations, planets, and objects you can see with a telescope. It can also download Digitized Sky Survey Charts and superimpose images over these charts.

  http://www.ap-i.net/skychart/start/ || skychartAUR

- StarPlot — 3-dimensional star chart viewer.

  http://starplot.org/ || starplotAUR

- Stellarium — Beautiful 3D planetarium that uses OpenGL to render a realistic sky in real time.

  http://www.stellarium.org/ || stellarium

- XEphem — Motif-based ephemeris and planetarium program.

  http://www.clearskyinstitute.com/xephem/xephem.html || xephemAUR

### 物理

#### 電子學

See also Wikipedia:Comparison of EDA software.

- gEDA — Full suite and toolkit of Electronic Design Automation tools that are used for electrical circuit design, schematic capture, simulation, prototyping, and production.

  http://www.geda-project.org/ || geda-gaf

- KiCAD — Software suite for electronic design automation (EDA) that facilitates the design of schematics for electronic circuits and their conversion to PCB (printed circuit board).

  http://www.kicad-pcb.org/display/KICAD/KiCad+EDA+Software+Suite || kicad

- KLogic — Application used for easily building and simulating digital circuits.

  http://www.a-rostin.de/ || klogicAUR[broken link: archived in aur-mirror]

- KTechLab — IDE for electronic and PIC microcontroller circuit design and simulation featuring an extensive circuit designer with autorouting and simulation of all common electronic components and logic elements.

  http://sourceforge.net/projects/ktechlab/ || ktechlab[broken link: package not found]

- Oregano — Graphical software application for schematic capture and simulation of electrical circuits. The actual simulation is done by the ngspice or Gnucap engines.

  https://github.com/marc-lorber/oregano || oreganoAUR

- QElectroTech — Application used to draw advanced electrical circuits.

  http://qelectrotech.org/ || qelectrotechAUR

- Qucs — Electronics circuit simulator application that gives you the ability to set up a circuit with a graphical user interface and simulate its large-signal, small-signal and noise behaviour.

  http://qucs.sourceforge.net/ || qucs

#### 物理模擬

- Code_Aster — Software package for Civil and Structural Engineering finite element analysis and numeric simulation in structural mechanics.

  http://www.code-aster.org || asterAUR

- Step — Two-dimensional physics simulation engine that is included in the KDE desktop as part of KDE Edu.

  http://edu.kde.org/step/ || kdeedu-step[broken link: replaced by step]

#### 單位轉換

- ConvertAll — Unit conversion application that allows one to combine units in any way (e.g. inches per decade), even if it does not make sense.

  http://convertall.bellz.org/ || convertallAUR

- Gonvert — Conversion utility that allows conversion between many units like CGS, Ancient, Imperial with many categories like length, mass, numbers, etc.

  http://www.unihedron.com/projects/gonvert/ || gonvertAUR

- Units — Command-line unit converter and calculator that can handle multiplicative scale changes, nonlinear conversions such as Fahrenheit to Celsius or wire gauge and others.

  http://www.gnu.org/s/units/ || units

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