Calculates network measures commonly used in Network Medicine. Measures such as the Largest Connected Component, the Relative Largest Connected Component, Proximity and Separation are calculated along with their statistical significance. Significance can be computed both using a degree-preserving randomization and non-degree preserving.

Implementation of a procedure for generating samples from a mixed distribution of ordinal and normal random variables with a pre-specified correlation matrix and marginal distributions. The details of the method are explained in Demirtas et al. (2015) <DOI:10.1080/10543406.2014.920868>.

This package produces odds ratio analyses with comprehensive reporting tools. Generates plots, summary tables, and diagnostic checks for logistic regression models fitted with glm() using binomial family. Provides visualisation methods, formatted reporting tables via gt', and tools to assess logistic regression model assumptions.

Simulate populations with desired properties and extract respondent driven samples. To better understand the usage of the package and the algorithm used, please refer to Perera, A., and Ramanayake, A. (2019) <https://www.aimr.tirdiconference.com/assets/images/portfolio/Conference-Proceeding-AIMR-19.pdf>.

Fast, wavelet-based Empirical Bayes shrinkage methods for signal denoising, including smoothing Poisson-distributed data and Gaussian-distributed data with possibly heteroskedastic error. The algorithms implement the methods described Z. Xing, P. Carbonetto & M. Stephens (2021) <https://jmlr.org/papers/v22/19-042.html>.

This package provides functions for estimation of wood volumes, number of logs, diameters along the stem and heights at which certain diameters occur, based on taper functions and other parameters. References: McTague, J. P., & Weiskittel, A. (2021). <doi:10.1139/cjfr-2020-0326>.

The Tanaka method enhances the representation of topography on a map using shaded contour lines. In this simplified implementation of the method, north-west white contours represent illuminated topography and south-east black contours represent shaded topography. See Tanaka (1950) <doi:10.2307/211219>.

This package provides a way of visualizing collections of time series and, optionally their future values, forecasts for their future values and prediction intervals for the forecasts. A web-based GUI can be used to display the information in a collection of time series.

Practicals, data sets, helper functions and interactive Shiny apps used in the introductory course on Bayesian inference at the Valencia International Bayesian Summer School. Installing vibass installs all the other packages used during the course and downloads all necessary materials for working off line.

Client for World Register of Marine Species (<https://www.marinespecies.org/>). Includes functions for each of the API methods, including searching for names by name, date and common names, searching using external identifiers, fetching synonyms, as well as fetching taxonomic children and taxonomic classification.

This package provides a set of functions for working with American postal codes, which are known as ZIP Codes. These include accessing ZIP Code to ZIP Code Tabulation Area (ZCTA) crosswalks, retrieving demographic data for ZCTAs, and tabulating demographic data for three-digit ZCTAs.

This package provides tools for implementing Retrieval-Augmented Generation (RAG) workflows with Large Language Models (LLM). Includes functions for document processing, text chunking, embedding generation, storage management, and content retrieval. Supports various document types and embedding providers ('Ollama', OpenAI'), with DuckDB as the default storage backend. Integrates with the ellmer package to equip chat objects with retrieval capabilities. Designed to offer both sensible defaults and customization options with transparent access to intermediate outputs. For a review of retrieval-augmented generation methods, see Gao et al. (2023) "Retrieval-Augmented Generation for Large Language Models: A Survey" <doi:10.48550/arXiv.2312.10997>.

This package contains a variety of functions, based around regime shift analysis of paleoecological data. Citations: Rodionov() from Rodionov (2004) <doi:10.1029/2004GL019448> Lanzante() from Lanzante (1996) <doi:10.1002/(SICI)1097-0088(199611)16:11%3C1197::AID-JOC89%3E3.0.CO;2-L> Hellinger_trans from Numerical Ecology, Legendre & Legendre (ISBN 9780444538680) rolling_autoc from Liu, Gao & Wang (2018) <doi:10.1016/j.scitotenv.2018.06.276> Sample data sets lake_data & lake_RSI processed from Bush, Silman & Urrego (2004) <doi:10.1126/science.1090795> Sample data set January_PDO from NOAA: <https://www.ncei.noaa.gov/access/monitoring/pdo/>.

Range-v3 is an extension of the Standard Template Library that makes its iterators and algorithms more powerful by making them composable. Unlike other range-like solutions which, seek to do away with iterators, in range-v3 ranges are an abstraction layer on top of iterators.

This package provides tools to create dynamic, submission-ready manuscripts, which conform to American Psychological Association manuscript guidelines. It provides R Markdown document formats for manuscripts (PDF and Word) and revision letters (PDF). Helper functions facilitate reporting statistical analyses or create publication-ready tables and plots.

This package provides tools to more conveniently perform tasks associated with add-on packages. pacman conveniently wraps library and package related functions and names them in an intuitive and consistent fashion. It seeks to combine functionality from lower level functions which can speed up workflow.

This package implements multiple imputation of missing covariates by Substantive Model Compatible Fully Conditional Specification. This is a modification of the popular FCS/chained equations multiple imputation approach, and allows imputation of missing covariate values from models which are compatible with the user specified substantive model.

This package provides functions for working with the scrypt key derivation functions. Scrypt is a password-based key derivation function created by Colin Percival. The algorithm was specifically designed to make it costly to perform large-scale custom hardware attacks by requiring large amounts of memory.

This package implements Freund and Schapire's Adaboost.M1 algorithm and Breiman's Bagging algorithm using classification trees as individual classifiers. Once these classifiers have been trained, they can be used to predict on new data. Also, cross validation estimation of the error can be done.

cl-rmath is a simple, autogenerated foreign interface for the standalone R API libRmath. There has been no effort to provide a high-level interface for the original library, instead, this library is meant to serve as a building block for such an interface.

The fbcp command provided by this package can be used to copy the primary frame buffer to the secondary frame buffer of a Raspberry Pi. It can for example mirror the primary HDMI output to a secondary LCD display connected to the Raspberry Pi board.

Hoe is a rake/rubygems helper for project Rakefiles. It helps manage, maintain, and release projects and includes a dynamic plug-in system allowing for easy extensibility. Hoe ships with plug-ins for all the usual project tasks including rdoc generation, testing, packaging, deployment, and announcement.

Hoe is a rake/rubygems helper for project Rakefiles. It helps manage, maintain, and release projects and includes a dynamic plug-in system allowing for easy extensibility. Hoe ships with plug-ins for all the usual project tasks including rdoc generation, testing, packaging, deployment, and announcement.

GLI allows you to create command-line applications in Ruby with Git-Like Interfaces: that is, they take subcommands in the style of git and gem. GLI uses a simple domain-specific language, but retains all the power of the built-in OptionParser.