Affymetrix microarray file format parser (CEL/CDF) for Ruby. FFI binding to Biolib port of R/Affyio by Benjamin Milo Bolstad

A simple biogem that allows computation of the aliphatic index of a protein

bioruby plugin to parse, write, and manipulate assembly data

Data mining and machine learning algorithms for JRuby

This library provides support for BGZF (Blocked GZip Format) in Ruby. BGZF, originally defined as part of the SAM/BAM specification, is used to compress record-oriented data in a way that facilitates random access, unlike plain gzip. BGZF is principally used for bioinformatics data but would be useful in other contexts as well.

Fasta reader, ORF emitter, sequence translation

Meta package for BioLinux distribution: bio-core, bio-core-ext

Ruby script for data-mining biostars.org using web-crawling techniques as well as utilizing the Biostars RESTful API. Statistical analysis requires R (http://www.r-project.org).

Tools to manipulate blat files from the command line. Uses the Bio::Blat object from BioRuby, but the parser has been modified to avoid reading the whole psl file, it yields just the current entry and it is up to the consumer to decide to store it or not." s.email = "ricardo.ramirez-gonzalez@tgac.ac.uk"

Ruby binding for BWA mapping software, built using Ruby-FFI library

A Ruby library for reading CD-HIT cluster reports

BioRuby plugin for ChEMBL REST API Client, Parser and Container classes

A parser for CIGAR format alignments.

Programmatic interface to the cNLS nuclear localisation signal prediction software

A dead simple method of running shell commands from within Ruby, by applying opinion

Bioruby core plugins

BioRuby plugins with dependecies from external library or tools

Restriction Enzyme Dataset from REBASE in yaml form

Methods to classify and manipulate PfEMP1 DBL-alpha sequence tags

decoding the dbSNP bitfield containg detaild information