BiocGem

Extract the database included in the Bioconductor annotation package and use it in the Ruby gem.

Installation

gem install biocgem

Usage

1.Generate your gem

Short options

biocgem new \
  -n org.Hs.eg.db \
  -s org.Hs.eg.sqlite \
  -v 3.14.0

Full options

biocgem new --bioc_package_name org.Mm.eg.db \
            --bioc_sqlite_database_name org.Mm.eg.sqlite \
            --gem_icon :mouse: \
            --gem_constant_name OrgMmEgDb \
            --gem_require_name org_mm_eg_db \
            --bioc_package_sha256sum 56f228448b50f1cea0fc15d6f61b1e94359ef885336034bf346693315390ad45 \
            --bioc_version 3.14 \
            --bioc_package_version 3.14.0

2. Install your gem

cd org.Hs.eg.db
rake extdata:download
# rake test
rake install

Development

With all due respect to the R language and Bioconductor maintainers...

Contributing

Bug reports and pull requests are welcome on GitHub at https://github.com/ruby-on-bioc/biocgem.

License

The gem is available as open source under the terms of the MIT License.