BioRuby

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

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
Support level: 
Primary Support
Software category: 
Genetics