Setup and connect to OpenTripPlanner (OTP) <http://www.opentripplanner.org/>. OTP is an open source platform for multi-modal and multi-agency journey planning written in Java'. The package allows you to manage a local version or connect to remote OTP server to find walking, cycling, driving, or transit routes. This package has been peer-reviewed by rOpenSci (v. 0.2.0.0).

This package provides functions to analyze and visualize meristic and mensural phenotypic data in a comparative framework. The package implements an automated pipeline that summarizes traits, identifies diagnostic variables among groups, performs multivariate and univariate statistical analyses, and produces publication-ready graphics. Earlier implementation are described in Torres (2025) <doi:10.64898/2025.12.18.695244> (v1.0.0) and Torres (2026) <doi:10.1002/ece3.73111> (v2.0.0).

This package provides a wrapper for the OpenTripPlanner <http://www.opentripplanner.org/> REST API. Queries are submitted to the relevant OpenTripPlanner API resource, the response is parsed and useful R objects are returned.

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.

In high-dimensional streaming data analysis, extracting core periodic features under real-time constraints remains challenging. Traditional dimension reduction methods fail to adapt to incremental data and yield low accuracy due to irrelevant variables. This package provides the Online Sliced Inverse Regression framework for cosine regression with high-dimensional irrelevant variables. It integrates subspace extraction of sliced inverse regression and incremental learning of online algorithms to efficiently handle periodic streaming data. Cai, Z., Li, R., & Zhu, L. (2020) <doi:10.48550/arXiv.2002.02795>.

Computes A-, MV-, D- and E-optimal or near-optimal row-column designs for two-colour cDNA microarray experiments using the linear fixed effects and mixed effects models where the interest is in a comparison of all pairwise treatment contrasts. The algorithms used in this package are based on the array exchange and treatment exchange algorithms adopted from Debusho, Gemechu and Haines (2018) <doi:10.1080/03610918.2018.1429617> algorithms after adjusting for the row-column designs setup. The package also provides an optional method of using the graphical user interface (GUI) R package tcltk to ensure that it is user friendly.

Applies an objective Bayesian method to the Mb capture-recapture model to estimate the population size N. The Mb model is a class of capture-recapture methods used to account for variations in capture probability due to animal behavior. Under the Mb formulation, the initial capture of an animal may effect the probability of subsequent captures due to their becoming "trap happy" or "trap shy.".

The Open Bodem Index (OBI) is a method to evaluate the quality of soils of agricultural fields in The Netherlands and the sustainability of the current agricultural practices. The OBI score is based on four main criteria: chemical, physical, biological and management, which consist of more than 21 indicators. By providing results of a soil analysis and management info the OBIC package can be use to calculate he scores, indicators and derivatives that are used by the OBI. More information about the Open Bodem Index can be found at <https://openbodemindex.nl/>.

The algorithm first identifies a population of individuals from Danish register data with any type of diabetes as individuals with two or more inclusion events. Then, it splits this population into individuals with either type 1 diabetes or type 2 diabetes by identifying individuals with type 1 diabetes and classifying the remainder of the diabetes population as having type 2 diabetes.

This package provides functions to download and tidy statistical data published by the Office for National Statistics <https://www.ons.gov.uk>. Covers GDP, inflation (CPI, CPIH, RPI), unemployment, employment, wages, trade, retail sales, house prices, productivity, population, and public sector finances. Most series are fetched from the ONS website using its CSV time series endpoint. House price data is sourced from HM Land Registry <https://www.gov.uk/government/organisations/land-registry>. Data is cached locally between sessions.

Identifies the optimal transformation of a surrogate marker and estimates the proportion of treatment explained (PTE) by the optimally-transformed surrogate at an earlier time point when the primary outcome of interest is a censored time-to-event outcome; details are described in Wang et al (2021) <doi:10.1002/sim.9185>.

This package provides a system for calculating the minimum total sample size needed to achieve a prespecified power or the optimal allocation for each treatment group with a fixed total sample size to maximize the power.

This package implements the orthogonal reparameterization approach recommended by Lancaster (2002) to estimate dynamic panel models with fixed effects (and optionally: panel specific intercepts). The approach uses a likelihood-based estimator and produces estimates that are asymptotically unbiased as N goes to infinity, with a T as low as 2.

The online principal component method can process the online data set. The philosophy of the package is described in Guo G. (2018) <doi:10.1080/10485252.2018.1531130>.

Conduct sensitivity analysis of omitted variable bias in linear econometric models using the methodology presented in Basu (2025) <doi:10.2139/ssrn.4704246>.

This package provides a transparent, modular, and base-R implemented statistical engine for linear regression (OLS), analysis of variance (ANOVA), and logistic regression (Logit). Designed under the principle of "assisted simplicity", it features an integrated methodological "customs" (Aduana) that automatically audits mathematical assumptions (e.g., multicollinearity, heteroskedasticity, normality, and perfect separation) and outputs publication-ready, APA-formatted tables. It deliberately avoids hidden heuristics and external dependencies, ensuring computational transparency and reproducibility for applied research.

Distributed reproducible computing framework, adopting ideas from git, docker and other software. By defining a lightweight interface around the inputs and outputs of an analysis, a lot of the repetitive work for reproducible research can be automated. We define a simple format for organising and describing work that facilitates collaborative reproducible research and acknowledges that all analyses are run multiple times over their lifespans.

This package provides a set of tools that enables using OxCal from within R. OxCal (<https://c14.arch.ox.ac.uk/oxcal.html>) is a standard archaeological tool intended to provide 14C calibration and analysis of archaeological and environmental chronological information. OxcAAR allows simple calibration with Oxcal and plotting of the results as well as the execution of sophisticated ('OxCal') code and the import of the results of bulk analysis and complex Bayesian sequential calibration.

Creativity research involves the need to score open-ended problems. Usually done by humans, automatic scoring using AI becomes more and more accurate. This package provides a simple interface to the Open Scoring API <https://openscoring.du.edu/docs>, leading creativity scoring technology by Organiscak et al. (2023) <doi:10.1016/j.tsc.2023.101356>. With it, you can score your own data directly from an R script.

Outcome-dependent sampling (ODS) schemes are cost-effective ways to enhance study efficiency. In ODS designs, one observes the exposure/covariates with a probability that depends on the outcome variable. Popular ODS designs include case-control for binary outcome, case-cohort for time-to-event outcome, and continuous outcome ODS design (Zhou et al. 2002) <doi: 10.1111/j.0006-341X.2002.00413.x>. Because ODS data has biased sampling nature, standard statistical analysis such as linear regression will lead to biases estimates of the population parameters. This package implements four statistical methods related to ODS designs: (1) An empirical likelihood method analyzing the primary continuous outcome with respect to exposure variables in continuous ODS design (Zhou et al., 2002). (2) A partial linear model analyzing the primary outcome in continuous ODS design (Zhou, Qin and Longnecker, 2011) <doi: 10.1111/j.1541-0420.2010.01500.x>. (3) Analyze a secondary outcome in continuous ODS design (Pan et al. 2018) <doi: 10.1002/sim.7672>. (4) An estimated likelihood method analyzing a secondary outcome in case-cohort data (Pan et al. 2017) <doi: 10.1111/biom.12838>.

This package provides tools for multivariate outlier detection based on geometric properties of multivariate data using random directional projections. Observation-level outlier scores are computed by jointly probing radial magnitude and angular alignment through repeated projections onto random directions, with optional robust centering and covariance adjustment. In addition to global outlier scoring, the method produces dimension-level contribution measures to support interpretation of detected anomalies. Visualization utilities are included to summarize directional contributions for extreme observations.

Automated reporting in Word and PowerPoint can require customization for each organizational template. This package works around this by adding standard reporting functions and an abstraction layer to facilitate automated reporting workflows that can be replicated across different organizational templates.

This package provides a utility to quickly obtain clean and tidy sports odds from The Odds API <https://the-odds-api.com>.

Obtain and evaluate various optimal designs for the 3, 4, and 5-parameter logistic models. The optimal designs are obtained based on the numerical algorithm in Hyun, Wong, Yang (2018) <doi:10.18637/jss.v083.i05>.