This package provides utility functions that extend the capabilities of the reference-based multiple imputation package rbmi'. It supports clinical trial analysis workflows with functions for managing imputed datasets, applying analysis methods across imputations, and tidying results for reporting.

Calculates tide heights based on tide station harmonics. It includes the harmonics data for 637 US stations. The harmonics data was converted from <https://github.com/poissonconsulting/rtide/blob/main/data-raw/harmonics-dwf-20151227-free.tar.bz2>, NOAA web site data processed by David Flater for XTide'. The code to calculate tide heights from the harmonics is based on XTide'.

Programmatic interface to the Web Service methods provided by the National Phenology Network (<https://usanpn.org/>), which includes data on various life history events that occur at specific times.

Client for ChromaDB', a vector database for storing and querying embeddings. This package provides a convenient interface to interact with the REST API of ChromaDB <https://docs.trychroma.com>.

Allows interaction with Interactive Brokers Trader Workstation <https://interactivebrokers.github.io/tws-api/>. Handles the connection over the network and the exchange of messages. Data is encoded and decoded between user and wire formats. Data structures and functionality closely mirror the official implementations.

Mediation analysis for multiple mediators by penalized structural equation models with different types of penalties depending on whether there are multiple mediators and only one exposure and one outcome variable (using sparse group lasso) or multiple exposures, multiple mediators, and multiple outcome variables (using lasso, L1, penalties).

shiny extension that adds regular expression filtering capabilities to the choice vector of the select list.

Visualize your favorite XKCD comic strip directly from R. XKCD <https://xkcd.com> web comic content is provided under the Creative Commons Attribution-NonCommercial 2.5 License.

Visualize the objects in orbits in 2D and 3D. The packages is under developing to plot the orbits of objects in polar coordinate system. See the examples in demo.

Calculate 22 summary statistics coded in C on time-series vectors to enable pattern detection, classification, and regression applications in the feature space as proposed by <doi:10.1007/s10618-019-00647-x>.

Search, composite, and download Google Earth Engine imagery with reticulate bindings for the Python module geedim by Dugal Harris. Read the geedim documentation here: <https://geedim.readthedocs.io/>. Wrapper functions are provided to make it more convenient to use geedim to download images larger than the Google Earth Engine size limit <https://developers.google.com/earth-engine/apidocs/ee-image-getdownloadurl>. By default the "High Volume" API endpoint <https://developers.google.com/earth-engine/cloud/highvolume> is used to download data and this URL can be customized during initialization of the package.

Tool-set to support Bayesian evidence synthesis. This includes meta-analysis, (robust) prior derivation from historical data, operating characteristics and analysis (1 and 2 sample cases). Please refer to Weber et al. (2021) <doi:10.18637/jss.v100.i19> for details on applying this package while Neuenschwander et al. (2010) <doi:10.1177/1740774509356002> and Schmidli et al. (2014) <doi:10.1111/biom.12242> explain details on the methodology.

Function for adapting the shape of the random walk Metropolis proposal as specified by robust adaptive Metropolis algorithm by Vihola (2012) <doi:10.1007/s11222-011-9269-5>. The package also includes fast functions for rank-one Cholesky update and downdate. These functions can be used directly from R or the corresponding C++ header files can be easily linked to other R packages.

Automatically apply different strategies to optimize R code. rco functions take R code as input, and returns R code as output.

Uses a combination of raytracing and multiple hill shading methods to produce 2D and 3D data visualizations and maps. Includes water detection and layering functions, programmable color palette generation, several built-in textures for hill shading, 2D and 3D plotting options, a built-in path tracer, Wavefront OBJ file export, and the ability to save 3D visualizations to a 3D printable format.

This package provides a piped query generator based on Edgar F. Codd's relational algebra, and on production experience using SQL and dplyr at big data scale. The design represents an attempt to make SQL more teachable by denoting composition by a sequential pipeline notation instead of nested queries or functions. The implementation delivers reliable high performance data processing on large data systems such as Spark', databases, and data.table'. Package features include: data processing trees or pipelines as observable objects (able to report both columns produced and columns used), optimized SQL generation as an explicit user visible table modeling step, plus explicit query reasoning and checking.

This package provides a unified framework for designing, simulating, and analyzing implementation rollout trials, including stepped wedge, sequential rollout, head-to-head, multi-condition, and rollout implementation optimization designs. The package enables users to flexibly specify rollout schedules, incorporate site-level and nested data structures, generate outcomes under rich hierarchical models, and evaluate analytic strategies through simulation-based power analysis. By separating data generation from model fitting, the tools support assessment of bias, Type I error, and robustness to model misspecification. The workflow integrates with standard mixed-effects modeling approaches and the tidyverse ecosystem, offering transparent and reproducible tools for implementation scientists and applied statisticians.

This package contains implementations of recurrent event data analysis routines including (1) survival and recurrent event data simulation from stochastic process point of view by the thinning method proposed by Lewis and Shedler (1979) <doi:10.1002/nav.3800260304> and the inversion method introduced in Cinlar (1975, ISBN:978-0486497976), (2) the mean cumulative function (MCF) estimation by the Nelson-Aalen estimator of the cumulative hazard rate function, (3) two-sample recurrent event responses comparison with the pseudo-score tests proposed by Lawless and Nadeau (1995) <doi:10.2307/1269617>, (4) gamma frailty model with spline rate function following Fu, et al. (2016) <doi:10.1080/10543406.2014.992524>.

An implementation of R's DBI interface using ODBC package as a back-end. This allows R to connect to any DBMS that has a ODBC driver.

Supports automated Markov chain Monte Carlo for arbitrarily structured correlation matrices. The user supplies data, a correlation matrix in symbolic form, the current state of the chain, a function that computes the log likelihood, and a list of prior distributions. The package's flagship function then carries out a parameter-at-a-time update of all correlation parameters, and returns the new state. The method is presented in Hughes (2023), in preparation.

Inspired by the classic RSA', we developed the improved Generalized Reporter Score-based Analysis (GRSA) method, implemented in the R package ReporterScore', along with comprehensive visualization methods and pathway databases. GRSA is a threshold-free method that works well with all types of biomedical features, such as genes, chemical compounds, and microbial species. Importantly, the GRSA supports multi-group and longitudinal experimental designs, because of the included multi-group-compatible statistical methods.

Calculate the flow of particles between polygons by two integration methods: integration by a cubature method and integration on a grid of points. Annie Bouvier, Kien Kieu, Kasia Adamczyk and Herve Monod (2009) <doi:10.1016/j.envsoft.2008.11.006>.

This package provides functions to manipulate rational functions, including basic arithmetic operators, derivatives, and integrals with EXPLICIT forms.

Client for the Ocean Biodiversity Information System (<https://obis.org>).