Genecache

Simple and fast conversion of GENE IDs. Conversion tables are downloaded and stored in local SQLite database for very fast access.

Two sources are supported right now:

• Hyperlink management system (http://biodb.jp)
• Mouse genome informatics (http://www.informatics.jax.org)

Add this line to your application's Gemfile:

gem 'genecache'

And then execute:

$ bundle

Or install it yourself as:

$ gem install genecache

If SQLite is installed in a non-default location, then:

$ gem install sqlite3 -- \
    --with-sqlite3-include=$SQLITE3/include \
    --with-sqlite3-lib=$SQLITE3/lib
$ gem install genecache

require 'genecache'

GeneCache.convert('biodb::hsa', 'ensg_id', 'omim_id', 'ENSG00000142192') # APP 
# returns ['104300', '104760', '605714']

GeneCache.convert('mgi', 'mgi_accession', 'ensembl_id', '87853')
# returns ['ENSMUSG00000027596']

1. Fork it
2. Create your feature branch (git checkout -b my-new-feature)
3. Commit your changes (git commit -am 'Add some feature')
4. Push to the branch (git push origin my-new-feature)
5. Create new Pull Request