bio-gggenome

Ruby client for GGGenome the Ultrafast sequence search, http://gggenome.dbcls.jp/en/

Note: this software is under active development!

    gem install bio-gggenome

    require 'bio-gggenome'
    db = "hg19"
    missmatch = 1
    query = "TTCATTGACAACATT"
    hits = Bio::GGGenome.search(db, missmatch, query)
    
    hits['results'].each do |hit|
      hit['name']     #=> 'chr1'
      hit['position'] #=> 83462476
      hit['strand']   #=> "+"
    end

The API doc is online. For more code examples see the test files in the source tree.

Information on the source tree, documentation, examples, issues and how to contribute, see

http://github.com/nakao/bio-gggenome

The BioRuby community is on IRC server: irc.freenode.org, channel: #bioruby.

If you use this software, please cite one of

• BioRuby: bioinformatics software for the Ruby programming language
• Biogem: an effective tool-based approach for scaling up open source software development in bioinformatics

This Biogem is published at #bio-gggenome

Copyright (c) 2013 Mitsuteru Nakao. See LICENSE.txt for further details.