[BioRuby] A new plugin: BioRuby UCSC API

[MISHIMA, Hiroyuki]

Hi all,

I uploaded a new BioRuby plugin 'bio-ucsc-api' to RubyGems.org.

RubyGem:
https://rubygems.org/gems/bio-ucsc-api

GitHub:
https://github.com/misshie/bioruby-ucsc-api

GitHub-Issues:
http://github.com/misshie/bioruby-ucsc-api/issues

BioRuby UCSC API is a API for the UCSC genome browser database. The
design is based on Ruby-Ensembl-API and Ruby-UCSC-API by Francesco
Strozzi and Jan Aerts.

Features of Bioruby UCSC API is the followings:
* Designed as a BioRuby plugin
* Using ActiveRecord as an O/R mapping framework
* Using the Bin index system to improve query performance
* Automatic conversion of "1-based full-closed intervals" to internal
"0-based half-closed intervals" (see also bioruby-genomic-interval)
* Supporting non-official MySql hosts (e.g. local servers)
* Using Rspec for the testing framework
* Trying to support whole hg19 and hg18 databases.

Current version is still experimental. I have implemented only tables
that I need to use now. Comments, suggestions, and requests are welcome.

Sincerely yours,
Hiro.
-- 
MISHIMA, Hiroyuki, DDS, Ph.D.
COE Research Fellow
Department of Human Genetics
Nagasaki University Graduate School of Biomedical Sciences