This package provides a function for fitting various penalized Bayesian cumulative link ordinal response models when the number of parameters exceeds the sample size. These models have been described in Zhang and Archer (2021) <doi:10.1186/s12859-021-04432-w>.

Calculate similarity between ontological terms and sets of ontological terms based on term information content and assess statistical significance of similarity in the context of a collection of terms sets - Greene et al. 2017 <doi:10.1093/bioinformatics/btw763>.

Programs for detecting and cleaning outliers in single time series and in time series from homogeneous and heterogeneous databases using an Orthogonal Greedy Algorithm (OGA) for saturated linear regression models. The programs implement the procedures presented in the paper entitled "Efficient Outlier Detection for Large Time Series Databases" by Pedro Galeano, Daniel Peña and Ruey S. Tsay (2026), working paper, Universidad Carlos III de Madrid. Version 1.1.2 fixes one bug.

Summarises key information in data mapped to the Observational Medical Outcomes Partnership (OMOP) common data model. Assess suitability to perform specific epidemiological studies and explore the different domains to obtain feasibility counts and trends.

This contains functions and data used by the Open Visualization Academy classes on data processing and visualization. The tutorial included with this package requires the gradethis package which can be installed using "remotes::install_github('rstudio/gradethis')".

This package provides functions to calculate the out-of-bag learning curve for random forests for any measure that is available in the mlr package. Supported random forest packages are randomForest and ranger and trained models of these packages with the train function of mlr'. The main function is OOBCurve() that calculates the out-of-bag curve depending on the number of trees. With the OOBCurvePars() function out-of-bag curves can also be calculated for mtry', sample.fraction and min.node.size for the ranger package.

Plotting toolbox for 2D oceanographic data (satellite data, sea surface temperature, chlorophyll, ocean fronts & bathymetry). Recognized classes and formats include netcdf, Raster, .nc and .gz files.

Model mixed integer linear programs in an algebraic way directly in R. The model is solver-independent and thus offers the possibility to solve a model with different solvers. It currently only supports linear constraints and objective functions. See the ompr website <https://dirkschumacher.github.io/ompr/> for more information, documentation and examples.

Generate 2, 3 or 4-dimensional gradient noise. The noise function is comparable to classic Perlin noise, but with less directional artefacts and lower computational overhead. It can have applications in procedural generation or (flow fields) simulations.

This package provides a toolbox for working with public opinion data from Argentina. It facilitates access to microdata and the calculation of indicators of the Trust in Government Index (ICG), prepared by the Torcuato Di Tella University. Although we will try to document everything possible in English, by its very nature Spanish will be the main language. El paquete fue pensado como una caja de herramientas para el trabajo con datos de opinión pública de Argentina. El mismo facilita el acceso a los microdatos y el cálculos de indicadores del à ndice de Confianza en el Gobierno (ICG), elaborado por la Universidad Torcuato Di Tella.

This package provides details such as Morphine Equivalent Dose (MED), brand name and opioid content which are calculated of all oral opioids authorized for sale by Health Canada and the FDA based on their Drug Identification Number (DIN) or National Drug Code (NDC). MEDs are calculated based on recommendations by Canadian Institute for Health Information (CIHI) and Von Korff et al (2008) and information obtained from Health Canada's Drug Product Database's monthly data dump or FDA Daily database for Canadian and US databases respectively. Please note in no way should output from this package be a substitute for medical advise. All medications should only be consumed on prescription from a licensed healthcare provider.

This package provides tools for managing nested, multi-level configuration systems with runtime mutability, type validation, and default value management. Supports creating hierarchical options managers with customizable validators for scalar and vector types (numeric, character, logical), enumerated values, bounded ranges, and complex structures like XY pairs. Options can be dynamically modified at runtime while maintaining type safety through validator functions, and easily reset to their default values when needed.

This package implements the Bayesian online changepoint detection method by Adams and MacKay (2007) <arXiv:0710.3742> for univariate or multivariate data. Gaussian and Poisson probability models are implemented. Provides post-processing functions with alternative ways to extract changepoints.

Apache OpenNLP jars and basic English language models.

Bindings, methods, and tuners for using ordinal classification models with the parsnip and dials packages. These include the regularized elastic net ordinal regression of Wurm, Hanlon, and Rathouz (2021) <doi:10.18637/jss.v099.i06> in ordinalNet', the ordinal classification trees of Galimberti, Soffritti, and Di Maso (2012) <doi:10.18637/jss.v047.i10> in rpartScore', and the latent variable ordinal forests of Hornung (2020) <doi:10.1007/s00357-018-9302-x> in ordinalForest'.

Quaternions and Octonions are four- and eight- dimensional extensions of the complex numbers. They are normed division algebras over the real numbers and find applications in spatial rotations (quaternions), and string theory and relativity (octonions). The quaternions are noncommutative and the octonions nonassociative. See the package vignette for more details.

Providing mean partition for ensemble clustering by optimal transport alignment(OTA), uncertainty measures for both partition-wise and cluster-wise assessment and multiple visualization functions to show uncertainty, for instance, membership heat map and plot of covering point set. A partition refers to an overall clustering result. Jia Li, Beomseok Seo, and Lin Lin (2019) <doi:10.1002/sam.11418>. Lixiang Zhang, Lin Lin, and Jia Li (2020) <doi:10.1093/bioinformatics/btaa165>.

Facilitates the automatic detection of acoustic signals, providing functions to diagnose and optimize the performance of detection routines. Detections from other software can also be explored and optimized. This package has been peer-reviewed by rOpenSci. Araya-Salas et al. (2022) <doi:10.1101/2022.12.13.520253>.

Facilitates the gathering of biodiversity occurrence data from disparate sources. Metadata is managed throughout the process to facilitate reporting and enhanced ability to repeat analyses.

Calculates ordinated diet breadth with some plotting functions.

An optimized method for distribution-preserving class-proportional down-sampling of bio-medical data <doi:10.1371/journal.pone.0255838>.

This package provides a function to detect and trim outliers in Gaussian mixture model-based clustering using methods described in Clark and McNicholas (2024) <doi:10.1007/s00357-024-09473-3>.

Multiple tools are now available for inferring the personalised germ line set from an adaptive immune receptor repertoire. Output from these tools is converted to a single format and supplemented with rich data such as usage and characterisation of novel germ line alleles. This data can be particularly useful when considering the validity of novel inferences. Use of the analysis provided is described in <doi:10.3389/fimmu.2019.00435>.

Intended to assist in the choice of the sampling strategy to implement in a survey.