This package provides different high-level graphics functions for displaying large datasets, displaying circular data in a very flexible way, finding local maxima, brewing color ramps, drawing nice arrows, zooming 2D-plots, creating figures with differently colored margin and plot region. In addition, the package contains auxiliary functions for data manipulation like omitting observations with irregular values or selecting data by logical vectors, which include NAs. Other functions are especially useful in spectroscopy and analyses of environmental data: robust baseline fitting, finding peaks in spectra, converting humidity measures.

This package provides functions for phylocom integration, community analyses, null-models, traits and evolution. It implements numerous ecophylogenetic approaches including measures of community phylogenetic and trait diversity, phylogenetic signal, estimation of trait values for unobserved taxa, null models for community and phylogeny randomizations, and utility functions for data input/output and phylogeny plotting. A full description of package functionality and methods are provided by Kembel et al. (2010).

This package provides a wrapper around the Parsing Expression Grammar Template Library, a C++11 library for generating parsing expression grammars, that makes it accessible within Rcpp. With this, developers can implement their own grammars and easily expose them in R packages.

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 is package for QTL mapping in a mixed model framework with separate detection and localization stages. The first stage detects the number of QTL on each chromosome based on the genetic variation due to grouped markers on the chromosome; the second stage uses this information to determine the most likely QTL positions. The mixed model can accommodate general fixed and random effects, including spatial effects in field trials and pedigree effects. It is applicable to backcrosses, doubled haploids, recombinant inbred lines, F2 intercrosses, and association mapping populations.

This package provides iterative methods for matrix completion that use nuclear-norm regularization. The package includes procedures for centering and scaling rows, columns or both, and for computing low-rank single value decompositions (SVDs) on large sparse centered matrices (i.e. principal components).

Call job::job(<code here>) to run R code as an RStudio job and keep your console free in the meantime. This allows for a productive workflow while testing (multiple) long-running chunks of code. It can also be used to organize results using the RStudio Jobs GUI or to test code in a clean environment. Two RStudio Addins can be used to run selected code as a job.

spacefillr enables generation of random and quasi-random space-filling sequences. It supports the following sequences: Halton, Sobol, Owen-scrambled Sobol, Owen-scrambled Sobol with errors distributed as blue noise, progressive jittered, progressive multi-jittered (PMJ), PMJ with blue noise, PMJ02, and PMJ02 with blue noise. The package also includes a C++ API.

This package provides a collection of R functions to perform nonparametric analysis of covariance for regression curves or surfaces. Testing the equality or parallelism of nonparametric curves or surfaces is equivalent to analysis of variance (ANOVA) or analysis of covariance (ANCOVA) for one-sample functional data. Three different testing methods are available in the package, including one based on L-2 distance, one based on an ANOVA statistic, and one based on variance estimators.

This package provides very fast read and write access to images stored in the NIfTI-1 and ANALYZE-7.5 formats, with seamless synchronisation between compiled C and interpreted R code. It also provides a C/C++ API that can be used by other packages.

This package contains linear and nonlinear regression methods based on partial least squares and penalization techniques. Model parameters are selected via cross-validation, and confidence intervals ans tests for the regression coefficients can be conducted via jackknifing.

This package extends shinydashboard with AdminLTE2 components. AdminLTE2 is a Bootstrap 3 dashboard template. Customize boxes, add timelines and a lot more.

This package provides an R interface to the dygraphs JavaScript charting library (a copy of which is included in the package). It provides rich facilities for charting time-series data in R, including highly configurable series- and axis-display and interactive features like zoom/pan and series/point highlighting.

This package provides functions for the input/output and visualization of medical imaging data that follow either the ANALYZE, NIfTI or AFNI formats. This package is part of the Rigorous Analytics bundle.

This package provides data sets and scripts to accompany Time Series Analysis and Its Applications: With R Examples (4th ed), by R.H. Shumway and D.S. Stoffer. Springer Texts in Statistics, 2017, https://doi.org/10.1007/978-3-319-52452-8, and Time Series: A Data Analysis Approach Using R. Chapman-Hall, 2019, https://doi.org/10.1201/9780429273285.

This package provides data sets and functions for Klein and Moeschberger (1997), "Survival Analysis, Techniques for Censored and Truncated Data", Springer.

Functions and examples are provided for transmission/disequilibrium tests for extended marker haplotypes, as in Clayton, D. and Jones, H. (1999) "Transmission/disequilibrium tests for extended marker haplotypes".

This package provides e-statistics (energy) tests and statistics for multivariate and univariate inference, including distance correlation, one-sample, two-sample, and multi-sample tests for comparing multivariate distributions, are implemented. Measuring and testing multivariate independence based on distance correlation, partial distance correlation, multivariate goodness-of-fit tests, clustering based on energy distance, testing for multivariate normality, distance components (disco) for non-parametric analysis of structured data, and other energy statistics/methods are implemented.

This package provides simple bindings to Unidata's udunits library.

GAMs, GAMMs and other generalized ridge regression with multiple smoothing parameter estimation by GCV, REML or UBRE/AIC. The library includes a gam() function, a wide variety of smoothers, JAGS support and distributions beyond the exponential family.

This package provides a simple HTTP client, with tools for making HTTP requests, and mocking HTTP requests. The package is built on R6, and takes inspiration from Ruby's faraday gem.

This is an extension to Shiny that brings interactions and animation effects from the jQuery UI library.

This package implements latent Dirichlet allocation (LDA) and related models. This includes (but is not limited to) sLDA, corrLDA, and the mixed-membership stochastic blockmodel. Inference for all of these models is implemented via a fast collapsed Gibbs sampler written in C. Utility functions for reading/writing data typically used in topic models, as well as tools for examining posterior distributions are also included.

The grammar of graphics as shown in ggplot2 has provided an expressive API for users to build plots. This package ggside extends ggplot2 by allowing users to add graphical information about one of the main panel's axis using a familiar ggplot2 style API with tidy data. This package is particularly useful for visualizing metadata on a discrete axis, or summary graphics on a continuous axis such as a boxplot or a density distribution.