This package provides a fast and adaptable tool to convert photos and images into usable colour schemes for data visualisation. Contains functionality to extract colour palettes from images, as well for the conversion of images between colour spaces.

Identifies the name of the current script in a variety of contexts, e.g. interactively or when sourced. Attempts to support RStudio environment. Based on <https://stackoverflow.com/a/32016824/2292993> and <https://stackoverflow.com/a/35842176/2292993>.

This package provides tools for computing various vector summaries of persistence diagrams studied in Topological Data Analysis. For improved computational efficiency, all code for the vector summaries is written in C++ using the Rcpp and RcppArmadillo packages.

Tool-set of modules for creating web-based applications that use plot based strategies to visualize and analyze multi-omics data. This package utilizes the shiny and plotly frameworks to provide a user friendly dashboard for interactive plotting.

RapidRAW is a high-performance, non-destructive RAW image editor built with Rust and Tauri. It features GPU-accelerated processing via WGPU, support for various camera RAW formats through the rawler library, and optional AI-powered features using ONNX Runtime.

STK++ <http://www.stkpp.org> is a collection of C++ classes for statistics, clustering, linear algebra, arrays (with an Eigen'-like API), regression, dimension reduction, etc. The integration of the library to R is using Rcpp'. The rtkore package includes the header files from the STK++ core library. All files contain only template classes and/or inline functions. STK++ is licensed under the GNU LGPL version 2 or later. rtkore (the stkpp integration into R') is licensed under the GNU GPL version 2 or later. See file LICENSE.note for details.

redumper is a low-level byte perfect CD disc dumper. It supports incremental dumps, advanced SCSI/C2 repair, intelligent audio CD offset detection, among other features. redumper is also a general purpose DVD/HD-DVD/Blu-ray disc dumper.

Lefser is an implementation in R of the popular "LDA Effect Size" (LEfSe) method for microbiome biomarker discovery. It uses the Kruskal-Wallis test, Wilcoxon-Rank Sum test, and Linear Discriminant Analysis to find biomarkers of groups and sub-groups.

Haplotype-aware Hidden Markov Model for RNA (HaHMMR) is a method for detecting copy number variations (CNVs) from bulk RNA-seq data. Additional examples, documentations, and details on the method are available at https://github.com/kharchenkolab/hahmmr/.

This package provides a functional gradient descent algorithm (boosting) for optimizing general risk functions utilizing component-wise (penalised) least squares estimates or regression trees as base-learners for fitting generalized linear, additive and interaction models to potentially high-dimensional data.

This package is a collection of miscellaneous utility functions, supporting data transformation tasks like recoding, dichotomizing or grouping variables, setting and replacing missing values. The data transformation functions also support labelled data, and all integrate seamlessly into a tidyverse workflow.

Bivariate data interpolation on regular and irregular grids, either linear or using splines are the main part of this package. It is intended to provide replacement functions for the ACM licensed akima::interp and tripack::tri.mesh functions.

This package provides procedures to answer the following questions: How much ram do you need to store a 100,000 by 100,000 matrix? How much ram is your current R session using? How much ram do you even have?

This package provides a data.table backend for dplyr. The goal of dtplyr is to allow you to write dplyr code that is automatically translated to the equivalent, but usually much faster, data.table code.

This package contains microarray gene expression data generated from the Connectivity Map build 02 and LINCS l1000. The data are used by the ccmap package to find drugs and drug combinations to mimic or reverse a gene expression signature.

DEMAND predicts Drug MoA by interrogating a cell context specific regulatory network with a small number (N >= 6) of compound-induced gene expression signatures, to elucidate specific proteins whose interactions in the network is dysregulated by the compound.

epiNEM is an extension of the original Nested Effects Models (NEM). EpiNEM is able to take into account double knockouts and infer more complex network signalling pathways. It is tailored towards large scale double knock-out screens.

This package provides functions to fit the binomial and multinomial additive hazard models and to estimate the contribution of diseases/conditions to the disability prevalence, as proposed by Nusselder and Looman (2004) and extended by Yokota et al (2017).

Fits from simple regression to highly customizable deep neural networks either with gradient descent or metaheuristic, using automatic hyper parameters tuning and custom cost function. A mix inspired by the common tricks on Deep Learning and Particle Swarm Optimization.

Easy-to-use tools for performing complex queries on avidaDB', a semantic database that stores genomic and transcriptomic data of self-replicating computer programs (known as digital organisms) that mutate and evolve within a user-defined computational environment.

Bayesian models for accurately estimating conditional distributions by race, using Bayesian Improved Surname Geocoding (BISG) probability estimates of individual race. Implements the methods described in McCartan, Fisher, Goldin, Ho and Imai (2025) <doi:10.1080/01621459.2025.2526695>.

This package provides a lossless compressed data format that uses a combination of the LZ77 algorithm and Huffman coding <https://www.rfc-editor.org/rfc/rfc7932>. Brotli is similar in speed to deflate (gzip) but offers more dense compression.

Implementation of the d/p/q/r family of functions for a continuous analog to the standard discrete binomial with continuous size parameter and continuous support with x in [0, size + 1], following Ilienko (2013) <arXiv:1303.5990>.

This package provides functions that format statistical output in a way that can be inserted into R Markdown documents. This is analogous to the apa_print() functions in the papaja package but prints Markdown or LaTeX syntax.