The analysis and inference of faunal remains recovered from archaeological sites concerns the field of zooarchaeology. The zooaRch package provides analytical tools to make inferences on zooarchaeological data. Functions in this package allow users to read, manipulate, visualize, and analyze zooarchaeological data.

This package provides the ggplot binning layer stat_summaries_hex(), which functions similar to its singular form, but allows the use of multiple statistics per bin. Those statistics can be mapped to multiple bin aesthetics.

This package runs a minimum-hypergeometric (mHG) test as described in "Discovering Motifs in Ranked Lists of DNA Sequences" by Eran Eden.

This package provides model-robust standard error estimators for cross-sectional, time series, clustered, panel, and longitudinal data.

This package provides a set of predicates and assertions for checking the properties of dates and times. This is mainly for use by other package developers who want to include run-time testing features in their own packages.

This package offers an interactive function for the detection of breakpoints in series.

This package implements a self-organizing map which has application in gene clustering. It provides functions like:

• filtering data by certain floor, ceiling, max/min ratio, and max - min difference;

• normalization of the data;

• get the average distortion measure;

• train a self-organizing map;

• summarize a som object;

• yeast cell cycle.

This package provides a collection of functions that perform operations on time-series accelerometer data, such as identify the non-wear time, flag minutes that are part of an activity bout, and find the maximum 10-minute average count value. The functions are generally very flexible, allowing for a variety of algorithms to be implemented.

The r-phylogram package is a tool for for developing phylogenetic trees as deeply-nested lists known as "dendrogram" objects. It provides functions for conversion between "dendrogram" and "phylo" class objects, as well as several tools for command-line tree manipulation and import/export via Newick parenthetic text. This improves accessibility to the comprehensive range of object-specific analytical and tree-visualization functions found across a wide array of bioinformatic R packages.

Ggfittext is a ggplot2 extension for fitting text into boxes.

This is a package for visualizing data quality of partially accruing data.

This package provides functions for obtaining the density, random variates and maximum likelihood estimates of the Zero-truncated Poisson lognormal distribution and their mixture distribution.

This package provides tools to create a lightweight Shiny wrapper for the css-loaders created by Luke Hass https://github.com/lukehaas/css-loaders. Wrapping a Shiny output will automatically show a loader when the output is (re)calculating.

This package provides a set of predicates and assertions for checking the properties of matrices. This is mainly for use by other package developers who want to include run-time testing features in their own packages.

This package provides a parallel backend for the %dopar% function using the multicore functionality of the parallel package.

This package provides a means to mock a package function, i.e., temporarily substitute it for testing. It was designed as a drop-in replacement for the now deprecated testthat::with_mock() and testthat::local_mock().

This is a data only package providing the algorithmic complexity of short strings, computed using the coding theorem method. For a given set of symbols in a string, all possible or a large number of random samples of Turing machines with a given number of states (e.g., 5) and number of symbols corresponding to the number of symbols in the strings were simulated until they reached a halting state or failed to end. This package contains data on 4.5 million strings from length 1 to 12 simulated on Turing machines with 2, 4, 5, 6, and 9 symbols. The complexity of the string corresponds to the distribution of the halting states.

This tool takes longitudinal dataset as input and analyzes if there is significant change of the features over time (a proxy for treatments), while detects and controls for covariates simultaneously. LongDat is able to take in several data types as input, including count, proportion, binary, ordinal and continuous data. The output table contains p values, effect sizes and covariates of each feature, making the downstream analysis easy.

HTML widgets is a framework for creating HTML widgets that render in various contexts including the R console, R Markdown documents, and Shiny web applications.

This package provides a number of user-level functions to work with grid graphics, notably to arrange multiple grid-based plots on a page, and draw tables.

Common utilities used in other Mosaic family packages are collected here.

This package provides an R interface to the Tabler HTML template. tablerDash is a light Bootstrap 4 dashboard template. There are different layouts available such as a one page dashboard or a multi-page template, where the navigation menu is contained in the navigation bar.

This package provides a graphical user interface for interactive Markov chain Monte Carlo (MCMC) diagnostics and plots and tables helpful for analyzing a posterior sample. The interface is powered by the Shiny web application framework and works with the output of MCMC programs written in any programming language (and has extended functionality for Stan models fit using the rstan and rstanarm packages).

This package is a port of the gWidgets2 API for the tcltk package.