Bioinformatics. Aggregate FastQC (quality control for Next Generation Sequencing -NGS-) results from many different samples in a single web page, with charts and tables organized and simplified. The main goal is to speed up the communication process with colleagues (PIs, Biologists, BioInformaticians).

GFF3 (genome browser) information and digest mRNA and CDS sequences. Options for low memory use and caching of records. Support for external FASTA files.

Ruby wrapper for the gff3-pltools.

A Ruby client for GGGenome the Ultrafast sequence search

Identify causative mutations in a model genome from NGS reads using the NGM method.

A BioGem to submit jobs on a queue system

Encode any message string into a DNA sequence

Enables programmatic parsing of HMMER version 3 reports

Parse PFAM HMM definition files so that the models can be accessible programmatically

Hydropathy scale for BioRuby

Reads metadata from Integrated Microbial Genomes (IMG) metadata files into a programmaticly useful state.

A Jruby wrapper to Incanter lib

BioInterchange is a Ruby gem, command-line tool, web-service for turning heterogeneous data formats such as JSON, XML, GFF3, etc., into RDF."

a programmatic interface to the iPCRess in-silico PCR software. iPCRess is part of the exonerate suite.

A bioruby plugin for calculating the isoelectric point of a protein

Basic tools for parsing, searching, and comparing JASPAR motifs; Based on Bio.motifs module in Biopython

Basic wrapper for the Kallistio Mapper

Provide access to the IlluminaHumanAnnotations. Database comes form Bioconductor's package lumiHumanIDMapping

A biogem for counting small kmers for fingerprinting nucleotide sequences. See README for details.

This biogem is built around Krona, a flashy way of representing hierarchical data.