List of open-source bioinformatics software

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This is a list of computer software which is made for bioinformatics and released under open-source software licenses with articles in Wikipedia.

Software Description Platform License Developer
.NET Bio Language-neutral toolkit built using the Microsoft 4.0 .NET Framework to help developers, researchers, and scientists .NET Framework Apache Collaborative project
AMPHORA Metagenomics analysis software Linux GPL ?
Anduril Component-based workflow framework for data analysis Linux, macOS, Windows GPL University of Helsinki
Ascalaph Designer Computer program for general purpose molecular modelling for molecular design and simulations. ? GPLv2 Agile Molecule
AutoDock Suite of automated docking tools ? GPL ?
Avogadro Molecule editor and visualizer for in computational chemistry, molecular modeling, bioinformatics, materials science, and related areas. ? GPL ?
Bioclipse Visual platform for chemo- and bioinformatics based on the Eclipse Rich Client Platform (RCP) ? Eclipse Public The Bioclipse Project
Bioconductor R (programming language) language toolkit Linux, macOS, Windows Artistic 2.0 Fred Hutchinson Cancer Research Center
BioJava Java Linux, macOS, Windows LGPL v2.1 Open Bioinformatics Foundation
BioJS JavaScript Web browser Apache ?
BioMOBY Registry of web services Web browser Artistic Open Bioinformatics Foundation
BioPerl Perl language toolkit Cross-platform Artistic, GPL Open Bioinformatics Foundation
BioPHP PHP language toolkit ? GPL v2 Open Bioinformatics Foundation
Biopython Python language toolkit Cross-platform Biopython[1] Open Bioinformatics Foundation
BioRuby Ruby language toolkit ? GPL v2 or Ruby Open Bioinformatics Foundation
CP2K Perform atomistic simulations of solid state, liquid, molecular and biological systems. ? GPL and LGPL Free open source GNU GPLv2 or later
EMBOSS Suite of packages for sequencing, searching, etc. ? GPL and LGPL Collaborative project
Galaxy Scientific workflow and data integration system Unix-like Academic Free Collaborative project
GenePattern Scientific workflow system that provides access to hundreds of genomic analysis tools Unix-like (public server); Linux, macOS, Windows MIT Broad Institute, UC San Diego
Geworkbench Genomic data integration platform Linux, macOS, Windows GeWorkbench License[2] Columbia University
GMOD Toolkit to address many common challenges at biological databases Unix-like (server), Web browser (client) Varies depending on tool Collaborative project
GenGIS Application that allows combining digital map data with information about biological sequences collected from the environment Windows, macOS GPL Collaborative project
Genomespace Centralized web application that provides data format transformations and facilitates connections with other bioinformatics tools Web browser LGPL Broad Institute, collaborative project
GENtle An equivalent to the proprietary Vector NTI, a tool to analyze and edit DNA sequence files ? GPL Magnus Manske
GROMACS Molecular dynamics package mainly designed for simulations of proteins, lipids and nucleic acids. Linux, macOS, Windows Common Public 1.0 GenoViz
Integrated Genome Browser Java-based desktop genome browser Linux, macOS, Windows Common Public 1.0 GenoViz
InterMine Extensive data warehouse system for the analysis and integration of biological datasets Cross-platform LGPL University of Cambridge
LabKey Server Software platform, allows organizations to integrate, analyze, and share complex biomedical data Linux, macOS, Windows Apache LabKey Software Foundation
LAMMPS Molecular dynamics program Linux, macOS, Windows Apache Sandia National Laboratories.
mothur Software for analysis of the 16S rRNA gene Linux, macOS, Windows ? University of Michigan
PathVisio Desktop software for drawing, analysing, and visualizing biological pathways Linux, macOS, Windows Apache 2.0 Maastricht University
Orange Component-based data mining and machine learning software suite, featuring a visual programming front-end for exploratory data analysis and interactive visualization, and Python bindings and libraries for scripting Linux, macOS, Windows GPL University of Ljubljana
Staden Package Sequence assembly, editing, and analysis, mainly consisting of gap4, gap5, and spin. Linux, macOS, Windows BSD Wellcome Trust Sanger Institute, Medical Research Council
Taverna workbench Tool to design and execute workflows Linux, macOS, Windows LGPL myGrid
UGENE Integrated bioinformatics tools Linux, macOS, Windows GPL 2 Unipro
Unipept Metaproteomics biodiversity analysis Web browser MIT Ghent University
VOTCA A Coarse-grained modeling package, GNU/Linux, macOS, Windows, any other Unix variety Apache License 2.0 Max Planck Institute for Polymer Research

See also

References

  1. ^ Biopython License
  2. ^ "GeWorkbench License". geWorkbench. Columbia University. 15 June 2014. 

External links

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