a BioRuby plugin: handling genomic intervals,such as "chr1:123-456", and overlap state between two intervals

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 BioGem to submit jobs on a queue system

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."

Phylogenetic analysis using IQ-Tree via BioRuby

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

A fast FASTA/FASTQ parser based on kseq.h by Heng Li

Log4r wrapper for BioRuby

Framework for creating telegram bots.

Some codes for parsing newick tree

Methods for handling multiwell plate annotations, includes ranges and quadrants

Primer3-related Ruby code - wrappers, Boulder IO, etc.

A toolkit for publishing scientific results and datasets using RDF, OWL, and related technologies

Store relationships in a triple-store, such as gene enrichment and QTL, and use this information for inference and causality

New Sambamba library comes with a command-line tool for working with SAM/BAM files. This gem brings some of its functionality to Ruby.

Shogi library

A wrapper for the signal peptide prediction algorith SignalP. Not very well supported, but seems to work for the author, at least.