This package computes Hartigan's dip test statistic for unimodality, multimodality and provides a test with simulation based p-values, where the original public code has been corrected.

reduceLCS is an implementation of the Reduce-Expand algorithm for LCS. It is a fast program to compute the approximate Longest Commons Subsequence of a set of strings.

RAJA offers portable, parallel loop execution by providing building blocks that extend the generally-accepted parallel for idiom. RAJA relies on standard C++14 features.

This package provides response time distributions (density/PDF, distribution function/CDF, quantile function, and random generation):

• Ratcliff diffusion model (Ratcliff & McKoon, 2008, <doi:10.1162/neco.2008.12-06-420>) based on C code by Andreas and Jochen Voss and

• linear ballistic accumulator (LBA; Brown & Heathcote, 2008, <doi:10.1016/j.cogpsych.2007.12.002>) with different distributions underlying the drift rate.

This package implements the R version of the log4j package. It offers hierarchic loggers, multiple handlers per logger, level based filtering, space handling in messages and custom formatting.

This package provides tools to create and modify network objects. The network class can represent a range of relational data types, and supports arbitrary vertex/edge/graph attributes.

Alabama stands for Augmented Lagrangian Adaptive Barrier Minimization Algorithm; it is used for optimizing smooth nonlinear objective functions with constraints. Linear or nonlinear equality and inequality constraints are allowed.

This package lets you easily use Bootstrap icons inside Shiny apps and R Markdown documents. More generally, icons can be inserted in any htmltools document through inline SVG.

This package fits generalized linear models efficiently using RcppEigen'. The iteratively reweighted least squares implementation utilizes the step-halving approach of Marschner to help safeguard against convergence issues.

This package computes model II simple linear regression using ordinary least squares (OLS), major axis (MA), standard major axis (SMA), and ranged major axis (RMA).

This lightweight package that adds progress bar to vectorized R functions apply. The implementation can easily be added to functions where showing the progress is useful e.g. bootstrap.

This package provides a utility library intended at providing configurable reader macros for common tasks such as accessors, hash-tables, sets, uiop:run-program, arrays and a few others.

cl-random is a library for generating random draws from various commonly used distributions, and for calculating statistical functions, such as density, distribution and quantiles for these distributions.

a Bayesian normalization procedure derived from first principles. Sanity estimates expression values and associated error bars directly from raw unique molecular identifier (UMI) counts without any tunable parameters.

Feature-based variance-sensitive clustering of omics data. Optimizes cluster assignment by taking into account individual feature variance. Includes several modules for statistical testing, clustering and enrichment analysis.

rocThrust is a parallel algorithm library that has been ported to HIP and ROCm, which uses the rocPRIM library. The HIP-ported library works on HIP and ROCm software.

Flay analyzes code for structural similarities. Differences in literal values, variable, class, method names, whitespace, programming style, braces vs do/end, etc are all ignored. Making this totally rad.

The Triform algorithm uses model-free statistics to identify peak-like distributions of TF ChIP sequencing reads, taking advantage of an improved peak definition in combination with known profile characteristics.

This is a package for fast Non-negative Matrix Factorization (NMF) with automatic rank-determination for dimension reduction of single-cell data using Seurat, RcppML nmf, SingleCellExperiments and similar.

This package performs score test using saddlepoint approximation to estimate the null distribution. It also prepares summary statistics for meta-analysis and performs meta-analysis to combine multiple association results.

This package provides auxiliary functions and data sets for "Ecological Models and Data", a book presenting maximum likelihood estimation and related topics for ecologists (ISBN 978-0-691-12522-0).

The R implementation for the Grammar of Succint Lipid Nomenclature parses different short hand notation dialects for lipid names. It normalizes them to a standard name. It further provides calculated monoisotopic masses and sum formulas for each successfully parsed lipid name and supplements it with LIPID MAPS Category and Class information. Also, the structural level and further structural details about the head group, fatty acyls and functional groups are returned, where applicable.

This package provides a collection of reference expression datasets with curated cell type labels, for use in procedures like automated annotation of single-cell data or deconvolution of bulk RNA-seq.

This package provides a function to infer pathway activity from gene expression. It contains the linear model inferred in the publication "Perturbation-response genes reveal signaling footprints in cancer gene expression".