Defines thresholds for breaking data into a number of discrete levels, minimizing the (mean) squared error within all bins.

This package provides tools to analyze and infer orthology and paralogy relationships between glutamine synthetase proteins in seed plants.

This package provides a parallel estimation method for generalized linear models without compiling with a multithreaded LAPACK or BLAS.

Generate port files for foreign function interfaces to C libraries by parsing C-family header files with CastXML'.

It provides functions to perform permutation conditional random one-sample and two-samples t-tests in a multivariate framework.

Generates, plays, and solves Sudoku puzzles. The GUI playSudoku() needs package "tkrplot" if you are not on Windows.

This package provides implementations of origin-based and symmetrized minimum covariance determinant (MCD) estimators, together with supporting utility functions.

Package designed for working with vectors and lists of vectors, mainly for turning them into other indexed data structures.

This package provides a collection of data sets to accompany the textbook "Using R for Introductory Statistics," second edition.

This package provides classes and methods for dense and sparse matrices and operations on them using LAPACK and SuiteSparse.

Extracts tagged text from markdown manuscripts for inclusion in dynamically generated revision letters. Provides an R markdown template based on papaja::revision_letter_pdf() with comment cross-referencing, a system for managing multiple sections of extracted text, and a way to automatically determine the page number of quoted sections from PDF manuscripts.

This package provides the hybrid Bayesian method Geometric Density Estimation. On the one hand, it scales the dimension of our data, on the other it performs inference. The method is fully described in the paper "Scalable Geometric Density Estimation" by Y. Wang, A. Canale, D. Dunson (2016) <http://proceedings.mlr.press/v51/wang16e.pdf>.

The rankFD() function calculates the Wald-type statistic (WTS) and the ANOVA-type statistic (ATS) for nonparametric factorial designs, e.g., for count, ordinal or score data in a crossed design with an arbitrary number of factors. Brunner, E., Bathke, A. and Konietschke, F. (2018) <doi:10.1007/978-3-030-02914-2>.

Designed for the import, analysis, and visualization of dosimetric and volumetric data in Radiation Oncology, the tools herein enable import of dose-volume histogram information from multiple treatment planning system platforms and 3D structural representations and dosimetric information from DICOM-RT files. These tools also enable subsequent visualization and statistical analysis of these data.

This package provides methods to compute chemical similarity between two or more reactions and molecules. Allows masking of chemical substructures for weighted similarity computations. Uses packages rCDK and fingerprint for cheminformatics functionality. Methods for reaction similarity and sub-structure masking are as described in: Giri et al. (2015) <doi:10.1093/bioinformatics/btv416>.

This package provides a differential abundance method for the analysis of microbiome data. radEmu estimates fold-differences in the abundance of taxa across samples relative to "typical" fold-differences. Notably, it does not require pseudocounts, nor choosing a denominator taxon. For more details, see Clausen et al. (2026) <doi:10.1093/biomet/asag009>.

The rfacts package is an R interface to the Fixed and Adaptive Clinical Trial Simulator FACTS. It programmatically invokes FACTS to run clinical trial simulations. It aggregates simulation output data into tidy data frames. These capabilities provide end-to-end automation for large-scale simulation pipelines, and they enhance computational reproducibility.

This package provides an interface to implementations of the GatingML2.0 standard to exchange gated cytometry data with other software platforms.

This package contains data used by pagoda2. The data within this package are the 3000 bone marrow cells used for vignettes.

This package computes cell fate bias for multi-lineage single-cell data. It also provides visualization tools for analyzing these biases.

This package extends the out of memory vectors of ff with statistical functions and other utilities to ease their usage.

This package provides a collection of dimensionality reduction techniques from R packages and provides a common interface for calling the methods.

This package provides data sets and functions for Klein and Moeschberger (1997), "Survival Analysis, Techniques for Censored and Truncated Data", Springer.

This is a pure R implementation of the Covariance Matrix Adaptation Evolution Strategy (CMA-ES) with optional restarts (IPOP-CMA-ES).