This package provides a consistent C++ class interface for a variety of commonly used matrix types, including sparse and HDF5-backed matrices.

This is a package for text mining for word processing and sentiment analysis using dplyr, ggplot2, and other Tidy tools.

Need to generate random numbers? How about random game boards? Or random positions in 3D space? This is the package for you!

Dhall.rb is a Ruby implementation of the Dhall configuration language. Dhall is a memory safe and non-Turing-complete configuration language.

Faker is a port of Data::Faker from Perl. It is used to easily generate fake data: names, addresses, phone numbers, etc.

This Ruby library provides an experimental logging system that tries to make logging more flexible and more consumable than plain-text logging.

This package provides tools for meta-analysis in the presence of hierarchical (and/or sampling) dependence, including with gene expression studies.

This package provides functions for the projection of data into the spaces defined by PCA, CoGAPS, NMF, correlation, and clustering.

The xlsxjars package collects all the external jars required for the xlxs package. This release corresponds to POI 3.10.1.

This package provides example datasets that represent 'real world examples' of Affymetrix data, unlike the artificial examples included in the package affy.

This package computes differentially bound sites from multiple ChIP-seq experiments using affinity (quantitative) data. Also enables occupancy (overlap) analysis and plotting functions.

This package provides useful functions to deal with the haven_labelled and haven_labelled_spss classes introduced by the haven package.

This package extends the ggplot2 plotting system to support network visualization. Inspired by ggtree, ggtangle is designed to work with network associated data.

This package provides tools to integrate nucleotide sequencing data (variant call format, e.g. VCF or BCF) or meta-analysis results in R.

This package provides a %dopar% adapter such that any type of futures can be used as backends for the foreach framework.

BRASS (Bare-Metal Ruby Assertion System Standard) is a basic foundational assertions framework for other assertion and test frameworks to make use of.

Mocha is a mocking and stubbing library with JMock/SchMock syntax, which allows mocking and stubbing of methods on real (non-mock) classes.

Boosting supported network analysis for high-dimensional omics applications. This package comes bundled with the MC-UPGMA clustering package by Yaniv Loewenstein.

Graphite provides networks derived from eight public pathway databases, and automates the conversion of node identifiers (e.g. from Entrez IDs to gene symbols).

This package allows for the imputation of the last largest censored observantions. This method brings less bias and more efficient estimates for AFT models.

This library lets you place an exclusive or shared lock on a file using the appropriate system call provided by the underlying operating system.

This library provides functions to calculate the differences between two tree-like structures. It is similar to Ruby's built-in TSort module.

This package provides various methods to load the pathways from the NCI Pathways Database in R graph objects and to re-format them.

The package provides the data for the RDP Classifier 2.14 released in August 2023. It contains the latest bacterial and archaeal taxonomy training set No. 19 as described in Wang Q, Cole JR. 2024. Updated RDP taxonomy and RDP Classifier for more accurate taxonomic classification. Microbiol Resour Announc 0:e01063-23. <doi.org/10.1128/mra.01063-23>.