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.
Project home page
Information on the source tree, documentation, examples, issues and how to contribute, see
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.