This package provides an easy way to determine which directories on the user's computer should be used to save data, caches and logs. It is a port of Python's Appdirs to R.

This package provides an R-based solution for symbolic differentiation. It admits user-defined functions as well as function substitution in arguments of functions to be differentiated. Some symbolic simplification is part of the work.

This package provides utilities for processing Rd objects and files. Extract argument descriptions and other parts of the help pages of functions.

This package provides tools for HTML generation and output in R.

Build complex HTML or LaTeX tables using kable() from knitr and the piping syntax from magrittr. The function kable() is a light weight table generator coming from knitr. This package simplifies the way to manipulate the HTML or LaTeX codes generated by kable() and allows users to construct complex tables and customize styles using a readable syntax.

This package provides tools to parse simple .ini configuration files to an structured list. Users can manipulate this resulting list with lapply() functions. This same structured list can be used to write back to file after modifications.

The grammar of graphics as implemented in ggplot2 is a poor fit for graph and network visualizations due to its reliance on tabular data input. The ggraph package is an extension of the ggplot2 API tailored to graph visualizations and provides the same flexible approach to building up plots layer by layer.

This package provides zm, a utility that allows you to zoom/navigate any plot when called with any active plot.

Circular Statistics, from "Topics in Circular Statistics" (2001) S. Rao Jammalamadaka and A. SenGupta, World Scientific.

This package infers directional Conservative causal core (gene) networks (C3NET). This is a version of the algorithm C3NET with directional network.

Handsontable is a data grid component with an Excel like appearance. Built in JavaScript, it integrates with any data source with peak efficiency. It comes with powerful features like data validation, sorting, grouping, data binding, formula support or column ordering.

This package provides a solution for analyzing digital images of plankton. In combination with ImageJ, an image analysis system, it processes digital images, measures individuals, trains for automatic classification of taxa, and finally, measures plankton samples (abundances, total and partial size spectra or biomasses, etc.).

Written in C++ using Rcpp, this package provides a collection of metrics for evaluating models.

This package creates lots of colorful plots in a multitude of variations. Try a demo of the LSD by running demotour().

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

This is a package that allows conversion to and from data in JavaScript Object Notation (JSON) format. This allows R objects to be inserted into Javascript/ECMAScript/ActionScript code and allows R programmers to read and convert JSON content to R objects. This is an alternative to the rjson package.

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.

Run R CMD check from R programmatically, and capture the results of the individual checks.

This is a package for regression modeling, testing, estimation, validation, graphics, prediction, and typesetting by storing enhanced model design attributes in the fit. The rms package is a collection of functions that assist with and streamline modeling. It also contains functions for binary and ordinal logistic regression models, ordinal models for continuous Y with a variety of distribution families, and the Buckley-James multiple regression model for right-censored responses, and implements penalized maximum likelihood estimation for logistic and ordinary linear models. The package works with almost any regression model, but it was especially written to work with binary or ordinal regression models, Cox regression, accelerated failure time models, ordinary linear models, the Buckley-James model, generalized least squares for serially or spatially correlated observations, generalized linear models, and quantile regression.

This package provides a unified pipeline to clean, prepare, plot, and run basic analyses on pupillometry experiments.

OOMPA offers R packages for gene expression and proteomics analysis. OOMPA uses S4 classes to construct object-oriented tools with a consistent user interface. All higher level analysis tools in OOMPA are compatible with the eSet classes defined in BioConductor. The lower level processing tools offer an alternative to parts of BioConductor, but can also be used to enhance existing BioConductor packages.

This package provides a flexible approach to Bayesian optimization / model based optimization building on the bbotk package. The mlr3mbo is a toolbox providing both ready-to-use optimization algorithms as well as their fundamental building blocks allowing for straightforward implementation of custom algorithms. Single- and multi-objective optimization is supported as well as mixed continuous, categorical and conditional search spaces. Moreover, using mlr3mbo for hyperparameter optimization of machine learning models within the mlr3 ecosystem is straightforward via mlr3tuning.

This package provides an R interface to the GNU Linear Programming Kit, software for solving large-scale linear programming (LP), mixed integer linear programming (MILP) and other related problems.

oai provides a general purpose client to work with any Open Archives Initiative Protocol for 'Metadata' Harvesting (OAI-PMH) service. Functions are provided to work with the OAI-PMH verbs: GetRecord, Identify, ListIdentifiers, ListMetadataFormats, ListRecords, and ListSets.