Enables mapping of country level and gridded user datasets.

This package provides interactive, configurable and graphics visualization of the chromosome regions of any living organism allowing users to map chromosome elements (like genes, SNPs etc.) on the chromosome plot. It introduces a special plot viz. the "chromosome heatmap" that, in addition to mapping elements, can visualize the data associated with chromosome elements (like gene expression) in the form of heat colors. Users can investigate the detailed information about the mappings (like gene names or total genes mapped on a location) or can view the magnified single or double stranded view of the chromosome at a location showing each mapped element in sequential order. The package provide multiple features like visualizing multiple sets, chromosome heat-maps, group annotations, adding hyperlinks, and labelling. The plots can be saved as HTML documents that can be customized and shared easily. In addition, you can include them in R Markdown or in R Shiny applications.

This package provides the "enrich" method to enrich list-like R objects with new, relevant components. The current version has methods for enriching objects of class family, link-glm, lm, glm and betareg. The resulting objects preserve their class, so all methods associated with them still apply. The package also provides the enriched_glm function that has the same interface as glm but results in objects of class enriched_glm. In addition to the usual components in a glm object, enriched_glm objects carry an object-specific simulate method and functions to compute the scores, the observed and expected information matrix, the first-order bias, as well as model densities, probabilities, and quantiles at arbitrary parameter values. The package can also be used to produce customizable source code templates for the structured implementation of methods to compute new components and enrich arbitrary objects.

This package provides fast and memory-friendly tools for text vectorization, topic modeling (LDA, LSA), word embeddings (GloVe), similarities. It provides a source-agnostic streaming API, which allows researchers to perform analysis of collections of documents which are larger than available RAM. All core functions are parallelized to benefit from multicore machines.

This package provides a menu-driven program and library of functions for carrying out convergence diagnostics and statistical and graphical analysis of Markov chain Monte Carlo (MCMC) sampling output.

This package provides graphical scales that map data to aesthetics, and provides methods for automatically determining breaks and labels for axes and legends.

This package contains tools for the organization, display, and analysis of the sorts of data frequently encountered in phonetics research and experimentation, including the easy creation of IPA vowel plots, and the creation and manipulation of WAVE audio files.

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 tools for maximum a posteriori estimation for linear and generalized linear mixed-effects models in a Bayesian setting. It extends the lme4 package.

This tool supports analyses on massive phylogenies comprising up to millions of tips. Functions include pruning, rerooting, calculation of most-recent common ancestors, calculating distances from the tree root and calculating pairwise distances. In addition, this tool takes care of calculation of phylogenetic signal and mean trait depth (trait conservatism), ancestral state reconstruction and hidden character prediction of discrete characters, simulating and fitting models of trait evolution, fitting and simulating diversification models, dating trees, comparing trees, and reading/writing trees in Newick format.

This package provides R bindings for Google's s2 library for geometric calculations on the sphere. High-performance constructors and exporters provide high compatibility with existing spatial packages, transformers construct new geometries from existing geometries, predicates provide a means to select geometries based on spatial relationships, and accessors extract information about geometries.

This package provides a toolset for Geometric Morphometrics and mesh processing. This includes (among other stuff) mesh deformations based on reference points, permutation tests, detection of outliers, processing of sliding semi-landmarks and semi-automated surface landmark placement.

This package provides tools to query the U.S. National Library of Medicine's Clinical Trials database. Functions are provided for a variety of techniques for searching the data using range queries, categorical filtering, and by searching for full-text keywords. Minimal graphical tools are also provided for interactively exploring the constructed data.

This package provides a helper that tests DBI back ends for conformity to the interface.

This package provides syntax highlighting for R source code. Currently it supports LaTeX and HTML output. Source code of other languages is supported via Andre Simon's highlight package.

This package computes various confidence intervals (CI) for the Kaplan-Meier estimator, namely: Petos CI, Rothman CI, CIs based on Greenwoods variance, Thomas and Grunkemeier CI and the simultaneous confidence bands by Nair and Hall and Wellner.

This package provides tools for calculating the Delaunay triangulation and the Dirichlet or Voronoi tessellation (with respect to the entire plane) of a planar point set. It plots triangulations and tessellations in various ways, clips tessellations to sub-windows, calculates perimeters of tessellations, and summarizes information about the tiles of the tessellation.

This package provides an SCSS compiler, powered by the libsass library. With this, R developers can use variables, inheritance, and functions to generate dynamic style sheets. The package uses the Sass CSS extension language, which is stable, powerful, and CSS compatible.

This package provides tools to convert statistical analysis objects from R into tidy data frames, so that they can more easily be combined, reshaped and otherwise processed with tools like dplyr, tidyr and ggplot2. The package provides three S3 generics: tidy, which summarizes a model's statistical findings such as coefficients of a regression; augment, which adds columns to the original data such as predictions, residuals and cluster assignments; and glance, which provides a one-row summary of model-level statistics.

This package provides a set of tools to perform Quantitative Trait Locus (QTL) analysis in experimental crosses. It is a reimplementation of the R/qtl package to better handle high-dimensional data and complex cross designs. Broman et al. (2018) <doi:10.1534/genetics.118.301595>.

Annoy is a small C++ library for Approximate Nearest Neighbors written for efficient memory usage as well an ability to load from and save to disk. This package provides an R interface.

This is a package for fast image processing for images in up to 4 dimensions (two spatial dimensions, one time/depth dimension, one color dimension). It provides most traditional image processing tools (filtering, morphology, transformations, etc.) as well as various functions for easily analyzing image data using R. The package wraps CImg, a simple, modern C++ library for image processing.

This package provides a set of S3 generics to axe components of fitted model objects and help reduce the size of model objects saved to disk.

This package provides basic infrastructure for linear test statistics and permutation inference in the framework of Strasser and Weber (1999).