Query functions to the GPlates <https://www.gplates.org/> Desktop Application and the GPlates Web Service <https://gws.gplates.org/> allow users to reconstruct past positions of geographic entities based on user-selected rotation models without leaving the R running environment. The online method (GPlates Web Service) makes the rotation of static plates, coastlines, and a low number of geographic coordinates available using nothing but an internet connection. The offline method requires an external installation of the GPlates Desktop Application, but allows the efficient batch rotation of thousands of coordinates, Simple Features (sf) and Spatial (sp) objects with custom reconstruction trees and partitioning polygons. Examples of such plate tectonic models are accessible via the chronosphere <https://cran.r-project.org/package=chronosphere>. This R extension is developed under the umbrella of the DFG (Deutsche Forschungsgemeinschaft) Research Unit TERSANE2 (For 2332, TEmperature Related Stressors in ANcient Extinctions).

Convert REDCap exports into tidy tables for easy handling of REDCap repeat instruments and event arms.

This package provides a collection of ROI optimization problems based on the NETLIB-LP collection. Netlib is a software repository, which amongst many other software for scientific computing contains a collection of linear programming problems. The purpose of this package is to make this problems easily accessible from R as ROI optimization problems.

Simulates the dynamics of exploited fish populations using the Jones modification of the Beverton-Holt equilibrium yield equation to compute yield-per-recruit and dynamic pool models (Ricker 1975) <https://publications.gc.ca/site/eng/480738/publication.html>. Allows users to evaluate minimum, slot, and inverted length limits on exploited fisheries using specified life history parameters. Users can simulate population under a variety of conditional fishing mortality and conditional natural mortality. Calculated quantities include number of fish harvested and dying naturally, mean weight and length of fish harvested, number of fish that reach specified lengths of interest, total number of fish and biomass in the population, and stock density indices.

This package implements two methods of estimating runs scored in a softball scenario: (1) theoretical expectation using discrete Markov chains and (2) empirical distribution using multinomial random simulation. Scores are based on player-specific input probabilities (out, single, double, triple, walk, and homerun). Optional inputs include probability of attempting a steal, probability of succeeding in an attempted steal, and an indicator of whether a player is "fast" (e.g. the player could stretch home). These probabilities may be calculated from common player statistics that are publicly available on team's webpages. Scores are evaluated based on a nine-player lineup and may be used to compare lineups, evaluate base scenarios, and compare the offensive potential of individual players. Manuscript forthcoming. See Bukiet & Harold (1997) <doi:10.1287/opre.45.1.14> for implementation of discrete Markov chains.

Predict fish year-class strength by calibration regression analysis of multiple recruitment index series.

Foundational package in the R4SUB (R for Regulatory Submission) ecosystem. Defines the core evidence table schema, parsers, indicator abstractions, and scoring primitives needed to quantify clinical submission readiness. Provides a standardized contract for ingesting heterogeneous sources (validation outputs, metadata, traceability) into a single evidence framework.

The Gene Ontology (GO) Consortium <https://geneontology.org/> organizes genes into hierarchical categories based on biological process (BP), molecular function (MF) and cellular component (CC, i.e., subcellular localization). Tools such as GoMiner (see Zeeberg, B.R., Feng, W., Wang, G. et al. (2003) <doi:10.1186/gb-2003-4-4-r28>) can leverage GO to perform ontological analysis of microarray and proteomics studies, typically generating a list of significant functional categories. The significance is traditionally determined by randomizing the input gene list to computing the false discovery rate (FDR) of the enrichment p-value for each category. We explore here the novel alternative of randomizing the GO database rather than the gene list.

This package provides functions and examples for testing hypothesis about the population mean and variance on samples drawn by r-size biased sampling schemes.

Includes algorithms to facilitate the assessment of extinction risk of species according to the IUCN (International Union for Conservation of Nature, see <https://iucn.org/> for more information) red list criteria.

Fast C++ agglomerative hierarchical clustering algorithm packaged into easily callable R functions, designed to help cluster biological terms based on how similar of genes are expressed in their activation.

Fundamental formulas for Radar, for attenuation, range, velocity, effectiveness, power, scatter, doppler, geometry, radar equations, etc. Based on Nick Guy's Python package PyRadarMet.

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.

The goal of readsdr is to bridge the design capabilities from specialised System Dynamics software with the powerful numerical tools offered by R libraries. The package accomplishes this goal by parsing XMILE files ('Vensim and Stella') models into R objects to construct networks (graph theory); ODE functions for Stan'; and inputs to simulate via deSolve as described in Duggan (2016) <doi:10.1007/978-3-319-34043-2>.

An HTTP API client for Lemmy (<https://github.com/LemmyNet/lemmy>) in R. Code and documentation are generated from the official JavaScript client source (<https://github.com/LemmyNet/lemmy-js-client>).

This package provides functions to access data from the Strava v3 API <https://developers.strava.com/>.

This package provides a lightweight toolkit to validate new observations when computing their predictions with a predictive model. The validation process consists of two steps: (1) record relevant statistics and meta data of the variables in the original training data for the predictive model and (2) use these data to run a set of basic validation tests on the new set of observations.

Implementation of JQuery <https://jquery.com> and CSS styles to allow the display of fireworks on a document. Toolkit to easily incorporate celebratory splashes in Rmarkdown and shiny apps.

This package implements the Representation-Level Control Surfaces (RLCS) paradigm for ensuring the reliability of autonomous systems and AI models. It provides three deterministic sensors: Residual Likelihood (ResLik) for population-level anomaly detection, Temporal Consistency Sensor (TCS) for drift and shock detection, and Agreement Sensor for multi-modal redundancy checks. These sensors feed into a standardized control surface that issues PROCEED', DEFER', or ABSTAIN signals based on strict safety invariants, allowing systems to detect and react to out-of-distribution states, sensor failures, and environmental shifts before they propagate to decision-making layers.

Use JSON templates to create folders and files structure for data science projects. Includes customized templates and accepts your own as JSON files.

Visualize your favorite XKCD comic strip directly from R. Includes full-text search with BM25 ranking and semantic similarity search via local GloVe embeddings, powered by a local DuckDB cache.

This package performs kernel based estimates on in-memory raster images from the raster package. These kernel estimates include local means variances, modes, and quantiles. All results are in the form of raster images, preserving original resolution and projection attributes.

R interface to DSDP semidefinite programming library. The DSDP software is a free open source implementation of an interior-point method for semidefinite programming. It provides primal and dual solutions, exploits low-rank structure and sparsity in the data, and has relatively low memory requirements for an interior-point method.

This R package connects to SWI-Prolog, <https://www.swi-prolog.org/>, so that R can send deterministic and non-deterministic queries to prolog (consult, query/submit, once, findall).