Scientific gems for Ruby. This is the full installation with rigid version constraints.

a library and command-line tool for quality assessment of de-novo transcriptome assemblies

Binder of samtools for ruby, on the top of FFI. This project was born from the need to add support of BAM files to the gee_fu genome browser (http://github.com/danmaclean/gee_fu).

ruby-ensembl-api provides a ruby API to the Ensembl databases (http://www.ensembl.org)

bio-ngs provides a framework for handling NGS data with BioRuby

bio-ngs provides a framework for handling NGS data with BioRuby

Statsample-timeseries is an extension to Statsample. It incorporates helpful timeseries functions and modules like ARMA, ARIMA, acf, pacf, lags etc.

This bio-gem facilitates the creation of pretty, publication quality SVG images from feature data.

Ruby UCSC API: accessing the UCSC Genome Database using Ruby

BaseSpace Ruby SDK is a Ruby based Software Development Kit to be used in the development of Apps and scripts for working with Illumina's BaseSpace cloud-computing solution for next-gen sequencing data analysis. The primary purpose of the SDK is to provide an easy-to-use Ruby environment enabling developers to authenticate a user, retrieve data, and upload data/results from their own analysis to BaseSpace.

Fasta reader, ORF emitter, sequence translation

A fast parser for FastQ files

This plugin reads, writes and generates NeXML

Repository of tools developed at Crop Genetics in JIC to work with polyploid wheat

Statsample-GLM is an extension to Statsample, an advance statistics suite in Ruby. This gem includes modules for Regression techniques such as Poisson Regression, Logistic Regression and Exponential Regression

Command line app and library code for Iroki, a phylogenetic tree customization program.

ruby-ucsc-api provides a ruby API to the UCSC databases (http://genome.ucsc.edu)

mass spectrometry proteomics, lipidomics, and tools, a rewrite of mspire, merging of ms-* gems

Data sources like PubMed, Entrez Gene, or Gene Ontology

A quick and dirty tool for analysis of transition and transversion frequency aross and alignment