wwood

bioruby-sra

Ruby interface to the NCBI Sequence Read Archive (SRA)

bioruby-hmmer3_report

Parser for hmmsearch and hmmscan in the HMMER 3 package.

sequenceserver

intuitive search form for blast searches

bioruby-krona

Programmatic interface to krona visualisations

bioruby-plasmoap

Ruby implementation of the PlasmoAP program to predict apicoplast transit peptides in Plasmodium falciparum

beta_diversity_squares

visualise ecological beta diversity

bio-kseq

Ruby inferface for kseq.h by Heng Li for fast FASTA/Q reading

biopython

Official git repository for Biopython (converted from CVS)

bioruby-singlem

Ruby interface to SingleM

CheckM

Beta check your meta before you wreck your meta

CommunityM

Identify, classify, and assemble 16S reads in metagenomic data.

divvy_proteomics

divvy up spectra from DTASelect files in a parsimonious way

event-bus

Setup an event bus for your library.

ExpressBetaDiversity

Taxon- and phylogenetic-based beta diversity measures.

fxtract

Extract sequences from a fastx file given a subsequence or identifier

GTDBLite

guix-notes

Notes on Guix

Jellyfish

A fast multi-threaded k-mer counter

lumberjack

A simple, powerful, and very fast logging utility that can be a drop in replacement for Logger or ActiveSupport::BufferedLogger. Provides support for automatically rolling log files even with multiple processes writing the same log file.

plotTree

rack-mount

Stackable dynamic tree based Rack router

rdoc

RDoc produces HTML and online documentation for Ruby projects. RDoc includes the rdoc and ri tools for generating and displaying online documentation.

ruby-coffee-script

Ruby CoffeeScript Compiler

seqtk

Toolkit for processing sequences in FASTA/Q formats

shoulda-matchers

Collection of testing matchers extracted from Shoulda

travis-rust-matrix

Example of how to configure a Rust crate for matrix builds on travis

tree_sisters

Annotate leaves on a phylogenetic tree by their named sister lineages

velvet

Short read de novo assembler using de Bruijn graphs

vsearch

Versatile open-source tool for metagenomics

yaggo

Generate command line parser using getopt_long