BioRuby

Software Summary

Mesabi

Default Module:

Other Modules Available:

Last Updated On:

Mesabi K40

Default Module:

Other Modules Available:

Last Updated On:

Mangi

Default Module:

Other Modules Available:

Last Updated On:

Mangi v100

Default Module:

Other Modules Available:

Last Updated On:

NICE

Default Module:

1.4.2

Other Versions Available:

1.4.2

Last Updated On:

Wednesday, December 7, 2016

Last Updated On:

Wednesday, December 7, 2016

Support Level:

Secondary Support

Software Access Level:

Open Access

Home Page:

Link

Software Categories:

Genetics

Software Description

BioRuby is a package of Open Source Ruby code, with classes for DNA and protein sequence analysis, alignment, database parsing, and other Bioinformatics tools.

Software Documentation

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General Linux

To run this softwar in a Linux environment run the commands:

module load bioruby
bioruby

BioRuby has a number of modules that can be used in your Ruby scripts. Writing Ruby scripts is outside the scope of this document, but below is a small example of how to read and print sequence data from a file:

#!/usr/bin/env ruby
require 'bio'
file=Bio::FastaFormat.open(ARGV.shift)
file.each_entry do |f|
puts "Sequence: " + f.seq
end

More information, including documentation and tutorials, may be found at the the BioRuby homepage.

Additional Information

BioRuby

info.png

Mesabi

Mesabi K40

Mangi

Mangi v100

NICE

Software Documentation Tabs