This is a companion package of the book "R Programming: Zero to Pro" <https://r02pro.github.io/>. It contains the datasets used in the book and provides interactive exercises corresponding to the book. It covers a wide range of topics including visualization, data transformation, tidying data, data input and output.

This package provides a set of functions to simplify reading data from files. The main function, reader(), should read most common R datafile types without needing any parameters except the filename. Other functions provide simple ways of handling file paths and extensions, and automatically detecting file format and structure.

In order to facilitate parsing of http requests and creating appropriate responses this package provides two classes to handle a lot of the housekeeping involved in working with http exchanges. The infrastructure builds upon the rook specification and is thus well suited to be combined with httpuv based web servers.

BaseX <https://basex.org> is a XML database engine and a compliant XQuery 3.1 processor with full support of W3C Update Facility'. This package is a full client-implementation of the client/server protocol for BaseX and provides functionalities to create, manipulate and query on XML-data.

r-rrbgen supports v1.3 of the bgen format. It supports reading and writing using 8, 16, 24 or 32 bits per probability, using Layout = 2 and CompressedSNPBlocks = 1, for bi-allelic SNPs with samples of ploidy 2. Any other format specification may crash unexpectedly without a properly defined error.

Prediction of claim counts using the feature based development factors introduced in the manuscript Hiabu M., Hofman E. and Pittarello G. (2023) <doi:10.48550/arXiv.2312.14549>. Implementation of Neural Networks, Extreme Gradient Boosting, and Cox model with splines to optimise the partial log-likelihood of proportional hazard models.

The goal of rlowdb is to provide a lightweight, file-based JSON database. Inspired by LowDB in JavaScript', it generates an intuitive interface for storing, retrieving, updating, and querying structured data without requiring a full-fledged database system. Ideal for prototyping, small-scale applications, and lightweight data management needs.

This package computes model and semi partial R squared with confidence limits for the linear and generalized linear mixed model (LMM and GLMM). The R squared measure from L. J. Edwards et al. (2008) is extended to the GLMM using penalized quasi-likelihood (PQL) estimation (see Jaeger et al. (2016)).

Calculates a range of UK freshwater invertebrate biotic indices including BMWP, Whalley, WHPT, Habitat-specific BMWP, AWIC, LIFE and PSI.

This package implements an S3 class based on data.table to store and process efficiently ethomics (high-throughput behavioural) data.

Miscellaneous R functions, including functions related to graphics (mostly for base graphics), permutation tests, running mean/median, and general utilities.

Allows printing of character strings as messages/warnings/etc. with ASCII animals, including cats, cows, frogs, chickens, ghosts, and more.

Flexible tools to fit, tune and obtain absolute risk predictions from regularized cause-specific cox models with elastic-net penalty.

This package provides tools to sort DICOM-format medical image files, and convert them to NIfTI-1 format.

Phase I/II adaptive dose-finding design for combination studies where toxicity rates are supposed to increase with both agents.

This package provides classes and methods for implementing aquatic ecosystem models, for running these models, and for visualizing their results.

This package performs some enhanced variable selection algorithms based on the least absolute shrinkage and selection operator for regression model.

Colour palettes inspired by Studio Ghibli <https://en.wikipedia.org/wiki/Studio_Ghibli> films, ported to R for your enjoyment.

This package provides tools for importing, merging, and analysing data from international assessment studies (TIMSS, PIRLS, PISA, ICILS, and PIAAC).

Currently using the proportional hazards (PH) model. More methods under other semiparametric regression models will be included in later versions.

Helpful functions for using mesh code (80km to 100m) data in Japan. Visualize mesh code using ggplot2 and leaflet', etc.

R interface for working with nanometer scale secondary ion mass spectrometry (NanoSIMS) data exported from Look at NanoSIMS.

Compute the average of a sequence of random vectors in a moving expanding window using a fixed amount of memory.

Access the New Zealand Freshwater Fish Database from R and a few functions to clean the data once in R.