SIGs/SciTech/PackageList
From FedoraProject
Contents |
List of scientific/engineering packages
Astronomy
- Please check out the separate page.
Biology / Bioinformatics Software
| Package Name | Description |
|---|---|
| bwa | Burrows-Wheeler Alignment Tool for efficient short read alignment (original Review Request) |
| elph | Tool to find motifs in a set of DNA or protein sequences |
| EMBOSS | Hundreds of useful, well documented applications for molecular sequence and other analyses. |
| glimmer | System for finding genes in microbial DNA |
| hmmer | Profile HMM software for protein sequence analysis |
| lagan | Local, global, and multiple alignment of DNA sequences |
| perl-bioperl | A collection of tools for bioinformatics in Perl |
| perl-biopython | A collection of tools for bioinformatics in Python |
| SAMtools | SAM (Sequence Alignment/Map) format is a generic format for storing large nucleotide sequence alignments. Tools for sorting, merging etc. sam format files. |
| seaview | Graphical multiple sequence alignment editor |
| SIBsim4 | Align expressed RNA sequences on a DNA template |
| pipviewer | Visualizer for multiple alignments of genomic sequences |
| PyPop | Software for analyzing population genomics data |
| vhybridize | Virtual Hybridization command line tools |
| ugene | Genome analysis suite |
Chemistry
| Package Name | Description |
|---|---|
| Avogadro | An advanced molecular editor for chemical purposes |
| cp2k | A molecular dynamics engine capable of classical and Car-Parrinello simulations |
| GChemistry | Gnome Chemistry Utils incl. periodic table of the elements, molecular structure viewer and chemical calculator |
| gromacs | Gromacs - Fast, Free and Flexible MD |
| inchi | The IUPAC International Chemical Identifier library |
| jmol | An open-source Java viewer for chemical structures in 3D |
| openbabel | Chemistry software file format converter |
| pymol | PyMOL Molecular Viewer |
| PyQuante | Python Quantum Chemistry |
| xdrawchem | 2D chemical structures drawing tool |
| BKChem | chemical drawing program |
| Kalzium | Period table, chemsitry calculator, etc. |
| wxmacmolplt | A graphics program for plotting 3-D molecular structures and normal modes |
Electrical engineering
| Package Name | Description |
|---|---|
| The Geda Suite | The complete suite for Electrical schematic and simulation |
| geda-docs geda-examples geda-gattrib geda-gnetlist geda-gschem geda-gsymcheck geda-symbols geda-utils |
Documentation for gEDA Circuit examples for gEDA Attribute editor for gEDA Netlister for the gEDA project Electronics schematics editor Symbol checker for electronics schematics editor A bunch of symbols of electronic devices used by gschem. Utilities for gEDA |
| gresistor | To allow for identification, resistors are usually marked with colored bands. Often refereed to as color codes, these markings are indicative of their resistance, tolerance and temperature coefficient. |
| gnucap | GNU Circuit Analysis Package |
| ktechlab | Development and simulation of microcontrollers and electronic circuits |
| Ngspice | A mixed level/signal circuit simulator |
| pcb | PCB is an interactive printed circuit board editor for the X window system. |
| toped | IC Layout Editor |
| xcircuit | Xcircuit is a general-purpose drawing program and also a specific-purpose CAD program for circuit schematic drawing and schematic capture. |
| qucs | Qucs is a circuit simulator with graphical user interface. The software aims to support all kinds of circuit simulation types, e.g. DC, AC, S-parameter and harmonic balance analysis. |
| freehdl | A project to develop a free, open source, GPL'ed VHDL simulator for Linux. |
Mathematics
| Package Name | Description |
|---|---|
| Armadillo | fast C++ matrix library with interfaces to LAPACK and ATLAS |
| blitz | Blitz++ is a C++ class library for matrix scientific computing |
| calc | Calc is an arbitrary precision C-like arithmetic system that is a calculator, an algorithm-prototyper, and a mathematical research tool. |
| kpolynome | KPolynome is a program to calculate mathematical polynomes based on given data coordinates. |
| mona | Mona is a decision procedure for the WS1S and WS2S logics |
| Octave | Octave is a Matlab-Clone |
| R | R is a software environment for statistical computing and graphics |
| scigraphica | Scientific application for data analysis and technical graphics |
Mechanical engineering
| Package Name | Description |
|---|---|
| FreeFEM | Free<Fem++ is an implementation of a language dedicated to the finite element method. It enables you to solve Partial Differential Equations (PDE) easily. |
| Qcad | QCad is an application for computer aided drafting in two dimensions (2d) |
Physics
| Package Name | Description |
|---|---|
| gromacs | Gromacs - Fast, Free and Flexible MD |
| jmol | An open-source Java viewer for chemical structures in 3D |
| openbabel | Chemistry software file format converter |
| pymol | PyMOL Molecular Viewer |
