This is a package for curve, surface and function fitting with an emphasis on splines, spatial data and spatial statistics. The major methods include cubic, and thin plate splines, Kriging, and compactly supported covariance functions for large data sets.

Hapassoc performs likelihood inference of trait associations with haplotypes and other covariates in generalized linear models (GLMs). The functions are developed primarily for data collected in cohort or cross-sectional studies. They can accommodate uncertain haplotype phase and handle missing genotypes at some SNPs.

This package provides tools to combine multidimensional arrays into a single array. This is a generalization of cbind and rbind. It works with vectors, matrices, and higher-dimensional arrays. It also provides the functions adrop, asub, and afill for manipulating, extracting and replacing data in arrays.

This package provides a set of tools to help explain which variables are most important in a random forests. Various variable importance measures are calculated and visualized in different settings in order to get an idea on how their importance changes depending on our criteria (Hemant Ishwaran and Udaya B. Kogalur and Eiran Z. Gorodeski and Andy J. Minn and Michael S. Lauer (2010) <doi:10.1198/jasa.2009.tm08622>, Leo Breiman (2001) <doi:10.1023/A:1010933404324>).

Download and install R packages stored in GitHub, BitBucket, or plain subversion or git repositories. This package is a lightweight replacement of the install_* functions in the devtools package. Indeed most of the code was copied over from devtools.

Create, read and write GEXF (Graph Exchange XML Format) graph files (used in Gephi and others). It allows the user to easily build/read graph files including attributes, GEXF visual attributes (such as color, size, and position), network dynamics (for both edges and nodes) and edge weighting. Users can build/handle graphs element-by-element or massively through data-frames, visualize the graph on a web browser through gexf-js (a JavaScript library) and interact with the igraph package.

This package implements the diffusion map method of data parametrization, including creation and visualization of diffusion maps, clustering with diffusion K-means and regression using the adaptive regression model.

This package aims to provide the most useful subset of Boost libraries for template use among CRAN packages.

This package provides bindings to ImageMagick, a comprehensive image processing library. It supports many common formats (PNG, JPEG, TIFF, PDF, etc.) and manipulations (rotate, scale, crop, trim, flip, blur, etc). All operations are vectorized via the Magick++ STL meaning they operate either on a single frame or a series of frames for working with layers, collages, or animation. In RStudio, images are automatically previewed when printed to the console, resulting in an interactive editing environment.

This package lets you standardize country names, convert them into one of 40 different coding schemes, convert between coding schemes, and assign region descriptors.

This package provides an interface to Amazon Web Services customer engagement services, including Simple Email Service, Connect contact center service, and more.

This package provides functions for the consistent analysis of compositional data (e.g. portions of substances) and positive numbers (e.g. concentrations).

This package provides implementations of the family of map() functions from the purrr package that can be resolved using any future-supported backend, e.g. parallel on the local machine or distributed on a compute cluster.

Changepoint implements various mainstream and specialised changepoint methods. These methods are suitable for finding single and multiple changepoints within data. Many popular non-parametric and frequentist methods are included as well.

This package provides a set of psychometric tools for cognitive diagnosis modeling based on the generalized deterministic inputs, noisy and gate (G-DINA) model by de la Torre (2011) doi:10.1007/s11336-011-9207-7 and its extensions, including the sequential G-DINA model by Ma and de la Torre (2016) doi:10.1111/bmsp.12070 for polytomous responses, and the polytomous G-DINA model by Chen and de la Torre doi:10.1177/0146621613479818 for polytomous attributes. Joint attribute distribution can be independent, saturated, higher-order, loglinear smoothed or structured. Q-matrix validation, item and model fit statistics, model comparison at test and item level and differential item functioning can also be conducted. A graphical user interface is also provided.

This package provides a general-purpose tool for dynamic report generation in R using Literate Programming techniques.

The lpSolveAPI package provides an R interface to lp_solve, a MILP, solver with support for pure linear, (mixed) integer/binary, semi-continuous and SOS models.

This package implements list environments. List environments are environments that have list-like properties. For instance, the elements of a list environment are ordered and can be accessed and iterated over using index subsetting.

This package provides functionality for random generation of spatial data in the spatstat family of packages. It generates random spatial patterns of points according to many simple rules (complete spatial randomness, Poisson, binomial, random grid, systematic, cell), randomised alteration of patterns (thinning, random shift, jittering), simulated realisations of random point processes (simple sequential inhibition, Matern inhibition models, Matern cluster process, Neyman-Scott cluster processes, log-Gaussian Cox processes, product shot noise cluster processes) and simulation of Gibbs point processes (Metropolis-Hastings birth-death-shift algorithm, alternating Gibbs sampler).

This package provides functions to manipulate binary fingerprints of arbitrary length. A fingerprint is represented by an object of S4 class fingerprint. The bitwise logical functions in R are overridden so that they can be used directly with fingerprint objects. A number of distance metrics are also available. Fingerprints can be converted to Euclidean vectors (i.e., points on the unit hypersphere) and can also be folded. Arbitrary fingerprint formats can be handled via line handlers. Currently handlers are provided for CDK, MOE and BCI fingerprint data.

This package lets you import foreign statistical formats into R via the ReadStat C library.

This package offers classes and functions to contact web servers while enforcing scheduling rules required by the sites. The URL class makes it easy to construct a URL by providing parameters as a vector. The Request class allows to describe Simple Object Access Protocol (SOAP) or standard requests: URL, method (POST or GET), header, body. The Scheduler class controls the request frequency for each server address by means of rules (Rule class). The RequestResult class permits to get the request status to handle error cases and the content.

This package provides an implementation of Adaptive Base Error Model in Ultra-deep Sequencing data (ABEMUS), which combines platform-specific genetic knowledge and empirical signal to readily detect and quantify somatic single nucleotide variants (SNVs) in circulating cell free DNA (cfDNA).

RcppDist provides a header-only C++ library with functions for additional statistical distributions that can be called from C++ when writing code using Rcpp or RcppArmadillo. Functions are available that return a NumericVector as well as doubles, and for multivariate or matrix distributions, Armadillo vectors and matrices.