BioRuby
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A BioRuby shell on Rails
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| Stable release |
1.5.0 / 1 July 2015
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|---|---|
| Repository | github |
| Development status | Active |
| Written in | Ruby |
| Operating system | Cross-platform |
| Type | Bioinformatics |
| License | GPL |
| Website | bioruby |
BioRuby is a collection of Open Source Ruby code, comprising classes for computation molecular biology and bioinformatics. It contains classes for DNA and protein sequence analysis, sequence alignment, biological database parsing, structural biology and other bioinformatics tasks.
BioRuby is released under the GNU GPL version 2 or Ruby licence and is one of a number of Bio* projects, designed to reduce code duplication.
In 2011, the BioRuby project introduced the Biogem software plugin system and are listed on biogems.info, with two or three new plugins added every month.
BioRuby is managed via the bioruby.org website and BioRuby GitHub repository.
The BioRuby project was first started in 2000 by Toshiaki Katayama as a Ruby implementation of similar bioinformatics packages such as BioPerl and BioPython. The initial release of version 0.1 has been frequently updated by contributors both informally and at organised “hackathon” events, with the most recent release of version 1.4.3.0001 in May 2013.
In June 2005, BioRuby was funded by IPA as an Exploratory Software Project, culminating with the release of version 1.0.0 in February 2006.
BioRuby has been the focus of a number of Google Summer of Code projects, including;
The above list of releases is abbreviated; the full list can be found here.
BioRuby is able to be installed onto any instance of Ruby; as Ruby is a highly cross platform language, BioRuby is available on most modern operating systems.
It is required that Ruby be installed prior to BioRuby installation.
Mac OS X has Ruby and RubyGems installed by default and for Unix/Linux installation of RubyGems is recommended.
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Wikipedia