This package implements nested cross-validation applied to the glmnet and caret packages. With glmnet this includes cross-validation of elastic net alpha parameter. A number of feature selection filter functions (t-test, Wilcoxon test, ANOVA, Pearson/Spearman correlation, random forest, ReliefF) for feature selection are provided and can be embedded within the outer loop of the nested CV. Nested CV can be also be performed with the caret package giving access to the large number of prediction methods available in caret.

This package provides tools to convert plot function calls (using expression or formula) to grob or ggplot objects that are compatible with the grid and ggplot2 environment. With this package, we are able to e.g. use cowplot to align plots produced by base graphics, grid, lattice, vcd etc. by converting them to ggplot objects.

Circular layout is an efficient way to visualise huge amounts of information. This package provides an implementation of circular layout generation in R as well as an enhancement of available software. Its flexibility is based on the usage of low-level graphics functions such that self-defined high-level graphics can be easily implemented by users for specific purposes. Together with the seamless connection between the powerful computational and visual environment in R, it gives users more convenience and freedom to design figures for better understanding complex patterns behind multi-dimensional data.

This package lets you import OpenDocument Spreadsheet (ODS) into R as a data frame. It also supports writing data frames to an ODS file.

Ridgeline plots provide a convenient way of visualizing changes in distributions over time or space. This package enables the creation of such plots in ggplot2.

This package provides a toolkit with infrastructure for representing, summarizing, and visualizing tree-structured regression and classification models.

This package combines a forecast of a time series, using the function forecast, with the dynamic plots from dygraphs.

mlr3pipelines enriches mlr3 with a diverse set of pipelining operators (PipeOps) that can be composed into graphs. Operations exist for data preprocessing, model fitting, and ensemble learning. Graphs can themselves be treated as mlr3 Learners and can therefore be resampled, benchmarked, and tuned.

This package provides an integrated set of functions for the analysis of multivariate normal datasets with missing values, including implementation of the EM algorithm, data augmentation, and multiple imputation.

This package provides a Cairo graphics device that can be use to create high-quality vector (PDF, PostScript and SVG) and bitmap output (PNG, JPEG, TIFF), and high-quality rendering in displays (X11 and Win32). Since it uses the same back-end for all output, copying across formats is WYSIWYG. Files are created without the dependence on X11 or other external programs. This device supports alpha channel (semi-transparent drawing) and resulting images can contain transparent and semi-transparent regions. It is ideal for use in server environments (file output) and as a replacement for other devices that don't have Cairo's capabilities such as alpha support or anti-aliasing. Backends are modular such that any subset of backends is supported.

This package provides alternative implementations of some base R functions, including sort, order, and match. The functions are simplified but can be faster or have other advantages.

This package provides a toolkit for working with Biological Observation Matrix (BIOM) files. Features include reading/writing all BIOM formats, rarefaction, alpha diversity, beta diversity (including UniFrac), summarizing counts by taxonomic level, and sample subsetting. Standalone functions for reading, writing, and subsetting phylogenetic trees are also provided.

This package provides tools to execute arbitrary R or C functions some time after the current time, after the R execution stack has emptied.

This package provides a variety of descriptive multivariate analyses with the singular value decomposition, such as principal components analysis, correspondence analysis, and multidimensional scaling. See An ExPosition of the Singular Value Decomposition in R (Beaton et al 2014) <doi:10.1016/j.csda.2013.11.006>.

This package provides three functions for dealing with dates: parse_iso_8601 recognizes and parses all valid ISO 8601 date and time formats, parse_date parses dates in unspecified formats, and format_iso_8601 formats a date in ISO 8601 format.

In this package Cardoso's JADE algorithm as well as his functions for joint diagonalization are ported to R. Also several other blind source separation (BSS) methods, like AMUSE and SOBI, and some criteria for performance evaluation of BSS algorithms, are given. The package is described in Miettinen, Nordhausen and Taskinen (2017) <doi:10.18637/jss.v076.i02>.

An R interface to the Pushbullet messaging service which provides fast and efficient notifications (and file transfer) between computers, phones and tablets.

This package fits latent (hidden) Markov models on mixed categorical and continuous (time series) data, otherwise known as dependent mixture models.

This package lets you assign, extract, or remove variable labels from R vectors.

This package simulates the process of installing a package and then attaching it. This is a key part of the devtools package as it allows you to rapidly iterate while developing a package.

This package provides a smooth mapping of multidimensional points into low-dimensional space defined by a self-organizing map. It is designed to work with FlowSOM and flow-cytometry use-cases.

This package provides tools for measuring inequality, concentration, and poverty measures. It provides both empirical and theoretical Lorenz curves.

This package provides a compendium of new geometries, coordinate systems, statistical transformations, scales and fonts for ggplot2, including splines, 1d and 2d densities, univariate average shifted histograms, a new map coordinate system based on the PROJ.4-library along with geom_cartogram() that mimics the original functionality of geom_map(), formatters for "bytes", a stat_stepribbon() function, increased plotly compatibility and the StateFace open source font ProPublica. Further new functionality includes lollipop charts, dumbbell charts, the ability to encircle points and coordinate-system-based text annotations.

This package provides support for simple features, a standardized way to encode spatial vector data. It binds to GDAL for reading and writing data, to GEOS for geometrical operations, and to PROJ for projection conversions and datum transformations.