Helper functions for TUFLOW FV models. Current functionality includes reading in and plotting output POINTS files and generating initial conditions based on point observations.

This package provides simple mechanisms for defining and interpreting package options. It provides helpers for interpreting environment variables, global options, defining default values and more.

This package provides an implementation of the Harmony algorithm for single cell integration. This package includes a standalone Harmony function and interfaces to external frameworks.

Collections of accessor functions and patterns to access the elements in compound type specifier, e.g. dimensions in (array element-type dimensions)

Bake is a task execution tool, inspired by Rake, but codifying many of the use cases which are typically implemented in an ad-hoc manner.

Allows one to use Osmium Tool (<https://osmcode.org/osmium-tool/>) from R. Osmium is a multipurpose command line tool that enables one to manipulate and analyze OpenStreetMap files through several different commands. Currently, this package does not aim to offer functions that cover the entire Osmium API, instead making available functions that wrap only a very limited set of its features.

NCL (NCAR Command Language) is one of the most popular spatial data mapping tools in meteorology studies, due to its beautiful output figures with plenty of color palettes designed by experts <https://www.ncl.ucar.edu/index.shtml>. Here we translate all NCL color palettes into R hexadecimal RGB colors and provide color selection function, which will help users make a beautiful figure.

Algorithms for solving a self-calibrated l1-regularized quadratic programming problem without parameter tuning. The algorithm, called DECODE, can handle high-dimensional data without cross-validation. It is found useful in high dimensional portfolio selection (see Pun (2018) <https://ssrn.com/abstract=3179569>) and large precision matrix estimation and sparse linear discriminant analysis (see Pun and Hadimaja (2019) <https://ssrn.com/abstract=3422590>).

This package implements safe policy learning under regression discontinuity designs with multiple cutoffs, based on Zhang et al. (2022) <doi:10.48550/arXiv.2208.13323>. The learned cutoffs are guaranteed to perform no worse than the existing cutoffs in terms of overall outcomes. The rdlearn package also includes features for visualizing the learned cutoffs relative to the baseline and conducting sensitivity analyses.

This package provides tools to perform random forest consensus clustering of different data types. The package is designed to accept a list of matrices from different assays, typically from high-throughput molecular profiling so that class discovery may be jointly performed. For references, please see Tao Shi & Steve Horvath (2006) <doi:10.1198/106186006X94072> & Monti et al (2003) <doi:10.1023/A:1023949509487> .

Insert/extract text "reminders" into/from function source code comments or as the "comment" attribute of any object. The former can be handy in development as reminders of e.g. argument requirements, expected objects in the calling environment, required options settings, etc. The latter can be used to provide information of the object and as simple manual "tooltips" for users, among other things.

Access to Boost Date_Time functionality for dates, durations (both for days and date time objects), time zones, and posix time ('ptime') is provided by using Rcpp modules'. The posix time implementation can support high-resolution of up to nano-second precision by using 96 bits (instead of 64 with R) to present a ptime object (but this needs recompilation with a #define set).

This package provides an interface to Mapzen'-based APIs (including geocode.earth, Nextzen, and NYC GeoSearch) for geographic search and geocoding, isochrone calculation, and vector data to draw map tiles. See <https://www.mapzen.com/documentation/> for more information. The original Mapzen has gone out of business, but rmapzen can be set up to work with any provider who implements the Mapzen API.

Data about the bakers, challenges, and ratings for "The Great British Bake Off", from Wikipedia <https://en.wikipedia.org/wiki/The_Great_British_Bake_Off>.

This tool performs pairwise correlation analysis and estimate causality. Particularly, it is useful for detecting the metabolites that would be altered by the gut bacteria.

Simulate plasma caffeine concentrations using population pharmacokinetic model described in Lee, Kim, Perera, McLachlan and Bae (2015) <doi:10.1007/s00431-015-2581-x>.

Checks that students have the correct version of R', R packages, RStudio and other dependencies installed, and that the recommended RStudio configuration has been applied.

Implementations of recent complex-valued wavelet spectral procedures for analysis of irregularly sampled signals, see Hamilton et al (2018) <doi:10.1080/00401706.2017.1281846>.

Estimation of changepoints using an "S-curve" approximation. Formation of confidence intervals for changepoint locations and magnitudes. Both abrupt and gradual changes can be modeled.

This package provides a function for plotting maps of agricultural field experiments that are laid out in grids. See Ryder (1981) <doi:10.1017/S0014479700011601>.

This package provides a ggplot2 extension that provides tools for automatically creating scales to focus on subgroups of the data plotted without losing other information.

This package provides a wrapper of different standard estimation methods for gravity models. This package provides estimation methods for log-log models and multiplicative models.

This package provides functions to view files in raw binary form like in a hex editor. Additional functions to specify and read arbitrary binary formats.

Using the MDL principle, it is possible to estimate parameters for a histogram-like model. The package contains the implementation of such an estimation method.