This package provides a toolkit for computing and visualizing CAPL-2 (Canadian Assessment of Physical Literacy, Second Edition; <https://www.capl-eclp.ca>) scores and interpretations from raw data.

This package implements a path algorithm for the Fused Lasso Signal Approximator. For more details see the help files or the article by Hoefling (2009) <arXiv:0910.0526>.

Create datasets with factorial structure through simulation by specifying variable parameters. Extended documentation at <https://scienceverse.github.io/faux/>. Described in DeBruine (2020) <doi:10.5281/zenodo.2669586>.

Estimating the number of factors in Exploratory Factor Analysis (EFA) with out-of-sample prediction errors using a cross-validation scheme. Haslbeck & van Bork (Preprint) <https://psyarxiv.com/qktsd>.

The gene-set distance analysis of omic data is implemented by generalizing distance correlations to evaluate the association of a gene set with categorical and censored event-time variables.

Supplies a set of functions to interface with bikeshare data following the General Bikeshare Feed Specification, allowing users to query and accumulate tidy datasets for specified cities/bikeshare programs.

Tool for diagnosing table joins. It combines the speed of `collapse` and `data.table`, the flexibility of `dplyr`, and the diagnosis and features of the `merge` command in `Stata`.

To test if a tensor time series following a Tucker-decomposition factor model has a Kronecker product structure. Supplementary functions for tensor reshape and its reversal are also included.

This is a Neural Network regression model implementation using Keras', consisting of 10 Long Short-Term Memory layers that are fully connected along with the rest of the inputs.

An interface for interacting with OSF (<https://osf.io>). osfr enables you to access open research materials and data, or create and manage your own private or public projects.

This package provides quasi-Newton methods to minimize partially separable functions. The methods are largely described by Nocedal and Wright (2006) <doi:10.1007/978-0-387-40065-5>.

The Penn World Table 9.x (<http://www.ggdc.net/pwt/>) provides information on relative levels of income, output, inputs, and productivity for 182 countries between 1950 and 2017.

Permutation based Kolmogorov-Smirnov test for paired samples. The test was proposed by Wang W.S., Amsler C. and Schmidt, P. (2025) <doi:10.1007/s00181-025-02779-0>.

Implementation of the Stochastic Multi-Criteria Acceptability Analysis (SMAA) family of Multiple Criteria Decision Analysis (MCDA) methods. Tervonen, T. and Figueira, J. R. (2008) <doi:10.1002/mcda.407>.

This package performs joint selection in Generalized Linear Mixed Models (GLMMs) using penalized likelihood methods. Specifically, the Penalized Quasi-Likelihood (PQL) is used as a loss function, and penalties are then augmented to perform simultaneous fixed and random effects selection. Regularized PQL avoids the need for integration (or approximations such as the Laplace's method) during the estimation process, and so the full solution path for model selection can be constructed relatively quickly.

This package provides a set of functions to analyze and print the development of a commodity using the Point and Figure (P&F) approach. A P&F processor can be used to calculate daily statistics for the time series. These statistics can be used for deeper investigations as well as to create plots. Plots can be generated as well known X/O Plots in plain text format, and additionally in a more graphical format.

This package provides efficient batch-effect adjustment of data with missing values. BERT orders all batch effect correction to a tree of pairwise computations. BERT allows parallelization over sub-trees.

Identify low-quality data using metrics developed for expression data derived from Formalin-Fixed, Paraffin-Embedded (FFPE) data. Also a function for making Concordance at the Top plots (CAT-plots).

Model-based Gene Set Analysis (MGSA) is a Bayesian modeling approach for gene set enrichment. The package mgsa implements MGSA and tools to use MGSA together with the Gene Ontology.

This package provides a way to read, write and display bitmap images stored in the JPEG format with R. It can read and write both files and in-memory raw vectors.

Uniform manifold approximation and projection is a technique for dimension reduction. This package provides an interface to the UMAP algorithm in R, including a translation of the original algorithm into R.

This package provides functions to handle basic input output. These functions always read and write UTF-8 (8-bit Unicode Transformation Format) files and provide more explicit control over line endings.

This package lets you fit beta regression and zero-or-one inflated beta regression and obtain Bayesian inference of the model via the Markov Chain Monte Carlo approach implemented in JAGS.

Estimate diagnosis performance (Sensitivity, Specificity, Positive predictive value, Negative predicted value) of a diagnostic test where can not measure the golden standard but can estimate it using the attributable fraction.