Packages — R (Page 17 of 61)

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r-rjava 1.0-6

This package provides a low-level interface to the Java VM very much like .C/.Call and friends. It allows the creation of objects, calling methods and accessing fields. …

r-rjson 0.2.21

This package provides functions to convert R objects into JSON objects and vice-versa. …

r-rjsonio 1.3-1.6

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…

r-rlang 1.0.5

This package provides a toolbox for working with base types, core R features like the condition system, and core `Tidyverse' features like tidy evaluation. …

r-rle 0.9.2

This package provides common `base' and `stats' methods for `rle' objects, aiming to make it possible to treat them transparently as vectors. …

r-rlecuyer 0.3-5

This package provides an interface to the C implementation of the random number generator with multiple independent streams developed by L'Ecuyer et al (2002). The main purpose of this package is to…

r-rlinsolve 0.3.2

Solving a system of linear equations is one of the most fundamental computational problems for many fields of mathematical studies, such as regression problems from statistics or numerical partial differential equations. This package…

r-rlist 0.4.6.2

This package provides a set of functions for data manipulation with list objects, including mapping, filtering, grouping, sorting, updating, searching, and other useful functions. Most functions are designed to be pipeline…

r-rlrsim 3.1-8

Rapid, simulation-based exact (restricted) likelihood ratio tests for testing the presence of variance components/nonparametric terms for models fit with `nlme::lme()', `lme4::lmer()', `lmeTest::lmer()', `gamm4::gamm4()', `mgcv::gamm()' and `SemiPar::spm()'. …

r-rmarkdown 2.16

This package provides tools to convert R Markdown documents into a variety of formats. …

r-rmeta 3.0

This package provides functions for simple fixed and random effects meta-analysis for two-sample comparisons and cumulative meta-analyses. It draws standard summary plots, funnel plots, and computes summaries and tests for association and…

r-rmetasim 3.1.14

This package provides an interface between R and the metasim simulation engine. The simulation environment is documented in: Strand, A.(2002), Metasim 1.0: an individual-based environment for simulating population genetics of complex population dynamics. …

r-rmisc 1.5.1

The Rmisc library contains functions for data analysis and utility operations. …

r-rmpfr 0.8-9

This package supports arithmetic (via S4 classes and methods) for arbitrary precision floating point numbers, including transcendental functions. To this end, the package interfaces with the "Multiple Precision Floating-Point Reliable" (MPFR) library. …

r-rmpi 0.6-9.2

This package provides an interface (wrapper) to MPI APIs. It also provides an interactive R manager and worker environment. …

r-rms 6.3-0

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…

r-rmtstat 0.3.1

This package provides functions for working with the Tracy-Widom laws and other distributions related to the eigenvalues of large Wishart matrices. …

r-rmysql 0.10.23

This package provides a DBI interface to MySQL / MariaDB. The RMySQL package contains an old implementation based on legacy code from S-PLUS which is being phased out. A modern…

r-rnaseqdtu 2.0-1.5bee1e7

This package provides an RNA-seq workflow for differential transcript usage (DTU) following Salmon quantification. This workflow performs a DTU analysis on simulated data. It also shows how to use stageR…

r-rncl 0.8.6

This package provides an interface to the Nexus class library which allows parsing of NEXUS, Newick and other phylogenetic tree file formats. It provides elements of the file that can be…

r-rnexml 2.4.7

This package provides access to phyloinformatic data in NeXML format. The package should add new functionality to R such as the possibility to manipulate NeXML objects in more various and refined…

r-rngtools 1.5.2

This package contains a set of functions for working with Random Number Generators (RNGs). In particular, it defines a generic S4 framework for getting/setting the current RNG, or RNG data that…

r-rngwell 0.10-7

This is a dedicated package to WELL pseudo random generators, which were introduced in Panneton et al. (2006), ``Improved Long-Period Generators Based on Linear Recurrences Modulo 2'', ACM Transactions on Mathematical…

r-rnifti 1.4.1

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…

r-rnmf 0.5.0

This package provides an implementation of robust nonnegative matrix factorization (rNMF). The rNMF algorithm decomposes a nonnegative high dimension data matrix into the product of two low rank nonnegative matrices, while detecting…

r-roar 1.32.0

This package provides tools for identifying preferential usage of APA sites, comparing two biological conditions, starting from known alternative sites and alignments obtained from standard RNA-seq experiments. …

r-robust 0.7-1

This package is a port of the S+ "Robust Library". It provides methods for robust statistics, notably for robust regression and robust multivariate analysis. …

r-robustbase 0.95-0

This package analyzes data with robust methods such as regression methodology including model selections and multivariate statistics. …

r-roc 1.72.0

This package provides utilities for "Receiver Operating Characteristic" (ROC) curves, with a focus on micro arrays. …

r-rockchalk 1.8.157

This package provides a collection of functions for interpretation and presentation of regression analysis. These functions are used to produce the statistics lectures in `http://pj.freefaculty.org/guides'. The package includes regression diagnostics, regression…

r-rocr 1.0-11

ROCR is a flexible tool for creating cutoff-parameterized 2D performance curves by freely combining two from over 25 performance measures (new performance measures can be added using a standard interface). Curves…

r-rook 1.1-1

This package contains the Rook specification and convenience software for building and running Rook applications. A Rook application is an R reference class object that implements a `call' method or an…

r-rootsolve 1.8.2.3

This package provides routines to find the root of nonlinear functions, and to perform steady-state and equilibrium analysis of "ordinary differential equations" (ODE). It includes routines that: 1. generate gradient…

r-ropls 1.28.2

Latent variable modeling with "Principal Component Analysis" (PCA) and "Partial Least Squares" (PLS) are powerful methods for visualization, regression, classification, and feature selection of omics data where the number of variables exceeds the…

r-rots 1.24.0

This package provides tools for calculating the "Reproducibility-Optimized Test Statistic" (ROTS) for differential testing in omics data. …

r-roxygen2 7.2.1

Roxygen2 is a Doxygen-like in-source documentation system for Rd, collation, and NAMESPACE files. …

r-rpart 4.1.16

This package provides recursive partitioning functions for classification, regression and survival trees. …

r-rpf 1.0.11

The purpose of this package is to factor out logic and math common to Item Factor Analysis fitting, diagnostics, and analysis. It is envisioned as core support code suitable for more…

r-rpostgresql 0.7-4

This package provides a Database Interface (DBI) compliant driver for R to access PostgreSQL database systems. …

r-rprojroot 2.0.3

This package helps accessing files relative to a project root. It provides helpers for robust, reliable and flexible paths to files below a project root. The root of a project is…

r-rprotobuflib 2.8.0

This package provides the headers and static library of Protocol buffers for other R packages to compile and link against. …

r-rqc 1.30.0

Rqc is an optimized tool designed for quality control and assessment of high-throughput sequencing data. It performs parallel processing of entire files and produces a report which contains a set of…

r-rrcov 1.7-1

This package provides an implementation of robust location and scatter estimation and robust multivariate analysis with high breakdown point. …

r-rsample 1.1.0

This package provides classes and functions to create and summarize different types of resampling objects (e.g. bootstrap, cross-validation). …

r-rsamtools 2.12.0

This package provides an interface to the `samtools', `bcftools', and `tabix' utilities for manipulating SAM (Sequence Alignment / Map), FASTA, binary variant call (BCF) and compressed indexed tab-delimited (tabix) files. …

r-rsbml 2.54.0

This package provides an R interface to libsbml for SBML parsing, validating output, provides an S4 SBML DOM, converts SBML to R graph objects. …

r-rsconnect 0.8.27

This package provides a programmatic deployment interface for RPubs, shinyapps.io, and RStudio Connect. Supported content types include R Markdown documents, Shiny applications, Plumber APIs, plots, and static web content. …

r-rselenium 1.7.9

This package provides a set of R bindings for the Selenium 2.0 WebDriver (see `https://selenium.dev/documentation/en/' for more information) using the `JsonWireProtocol' (see `https://github.com/SeleniumHQ/selenium/wiki/JsonWireProtocol' for more information). Selenium 2.0 WebDriver allows driving a web…

r-rserve 1.8-6

Rserve acts as a socket server (TCP/IP or local sockets) which allows binary requests to be sent to R. Every connection has a separate workspace and working directory. Client-side implementations…

r-rslurm 0.6.1

This package provides functions that simplify submitting R scripts to a Slurm workload manager, in part by automating the division of embarrassingly parallel calculations across cluster nodes. …

r-rsofia 1.1

This package is a port of sofia-ml to R. Sofia-ml is a suite of fast incremental algorithms for machine learning that can be used for training models for classification or ranking. …

r-rsolnp 1.16

The Rsolnp package implements a general non-linear augmented Lagrange multiplier method solver, a "sequential quadratic programming" (SQP) based solver). …

r-rsparse 0.5.1

This package implements many algorithms for statistical learning on sparse matrices: matrix factorizations, matrix completion, elastic net regressions, factorization machines. The rsparse package also enhances the Matrix package by providing methods for…

r-rspectra 0.16-1

This package provides an R interface to the Spectra library for large-scale eigenvalue and SVD problems. It is typically used to compute a few eigenvalues/vectors of an n by n matrix,…

r-rsq 2.5

Calculate generalized R-squared, partial R-squared, and partial correlation coefficients for generalized linear (mixed) models (including quasi models with well defined variance functions). …

r-rsqlite 2.2.17

This package embeds the SQLite database engine in R and provides an interface compliant with the DBI package. The source for the SQLite engine (version 3.8.8.2) is included. …

r-rstan 2.21.7

User-facing R functions are provided to parse, compile, test, estimate, and analyze Stan models by accessing the header-only Stan library provided by the StanHeaders package. The Stan project develops a probabilistic…

r-rstanarm 2.21.3

This package estimates previously compiled regression models using the `rstan' package, which provides the R interface to the Stan C++ library for Bayesian estimation. Users specify models via the customary R…

r-rstantools 2.2.0

This package provides various tools for developers of R packages interfacing with Stan (https://mc-stan.org), including functions to set up the required package structure, S3 generics and default methods to unify function naming across…

r-rstatix 0.7.0

This package provides a simple and intuitive pipe-friendly framework, coherent with the `tidyverse' design philosophy, for performing basic statistical tests, including t-test, Wilcoxon test, ANOVA, Kruskal-Wallis and correlation analyses. The output of each…

r-rstpm2 1.5.7

This package provides R implementations of "generalized survival models" (GSMs), smooth "accelerated failure time" (AFT) models and Markov multi-state models. …

r-rstudioapi 0.14

This package provides functions to access the RStudio API and provide informative error messages when it's not available. …

r-rsubread 2.10.5

This package provides tools for alignment, quantification and analysis of second and third generation sequencing data. It includes functionality for read mapping, read counting, SNP calling, structural variant detection and gene fusion…

r-rsvd 1.0.5

Low-rank matrix decompositions are fundamental tools and widely used for data analysis, dimension reduction, and data compression. Classically, highly accurate deterministic matrix algorithms are used for this task. However, the emergence…

r-rsvg 2.3.1

This package allows you to render vector-based SVG images into high-quality custom-size bitmap arrays using the librsvg2 library. The resulting bitmap can be written to e.g. PNG, JPEG or WEBP…

r-rticles 0.24

This package provides a suite of custom R Markdown formats and templates for authoring journal articles and conference submissions. …

r-rtracklayer 1.56.1

rtracklayer is an extensible framework for interacting with multiple genome browsers (currently UCSC built-in) and manipulating annotation tracks in various formats (currently GFF, BED, bedGraph, BED15, WIG, BigWig and 2bit built-in). The user…

r-rtsne 0.16

This package provides an R wrapper around the fast T-distributed Stochastic Neighbor Embedding using a Barnes-Hut implementation. …

r-rttf2pt1 1.3.10

This package contains the program `ttf2pt1', for use with the `extrafont' package. …

r-rtweet 1.0.2

This package implements tools designed to collect and organize Twitter data via Twitter's REST and stream Application Program Interfaces (API) (https://developer.twitter.com/en/docs). …

r-runit 0.4.32

This package provides R functions implementing a standard unit testing framework, with additional code inspection and report generation tools. …

r-ruvseq 1.30.0

This package implements methods to "remove unwanted variation" (RUV) of Risso et al. (2014) for the normalization of RNA-Seq read counts between samples. …

r-rvcheck 0.2.1

This package provides tools to check the latest release version of R and R packages (on CRAN, Bioconductor or Github). …

r-rvenn 1.1.0

The base functions for set operations in `R' can be used for only two sets. This package `RVenn' provides functions for dealing with multiple sets. It uses `purr' to find…

r-rversions 2.1.2

This package provides functions to query the main R repository to find the versions that `r-release' and `r-oldrel' refer to, and also all previous R versions and their release dates. …

r-rvest 1.0.3

`r-rvest' helps you scrape information from web pages. It is designed to work with `magrittr' to make it easy to express common web scraping tasks, inspired by libraries like `BeautifulSoup'. …

r-rworldmap 1.3-6

Enables mapping of country level and gridded user datasets. …

r-rxnat 1.0.15

This package allows communication with the Extensible Neuroimaging Archive Toolkit. Rxnat uses the XNAT REST API to perform data queries and download images. …

r-s2 1.1.0

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…

r-s4vectors 0.34.0

The S4Vectors package defines the `Vector' and `List' virtual classes and a set of generic functions that extend the semantic of ordinary vectors and lists in R. Package developers can easily…

r-sampling 2.9

This package provides functions for drawing and calibrating samples. …

r-samr 3.0

This is a package for significance analysis of Microarrays for differential expression analysis, RNAseq data and related problems. …

r-sandwich 3.0-2

This package provides model-robust standard error estimators for cross-sectional, time series, clustered, panel, and longitudinal data. …

r-sankeyd3 0.3.2-1.fd50a74

This package provides an R library to generate Sankey network graphs in R and Shiny via the D3 visualization library. …

r-sanssouci 0-1.5fe20a9

The goal of sansSouci is to perform post hoc inference: in a multiple testing context, sansSouci provides statistical guarantees on possibly user-defined and/or data-driven sets of hypotheses. …

r-sapa 2.0-3

This package provides software for the book Spectral Analysis for Physical Applications, Donald B. Percival and Andrew T. Walden, Cambridge University Press, 1993. …

r-sass 0.4.2

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…

r-saver 1.1.2

This package is an implementation of a regularized regression prediction and empirical Bayes method to recover the true gene expression profile in noisy and sparse single-cell RNA-seq data. In "single-cell RNA…

r-savr 1.34.0

This package provides tools to parse Illumina Sequence Analysis Viewer (SAV) files, access data, and generate QC plots. …

r-scaledmatrix 1.4.1

This package provides delayed computation of a matrix of scaled and centered values. The result is equivalent to using the `scale' function but avoids explicit realization of a dense matrix during…

r-scales 1.2.1

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

r-scannotatr 1.2.0

This package comprises a set of pretrained machine learning models to predict basic immune cell types. This enables to quickly get a first annotation of the cell types present in the…

r-scater 1.24.0

This package provides a collection of tools for doing various analyses of single-cell RNA-seq gene expression data, with a focus on quality control. …

r-scattermore 0.8

This package provides C-based tools for converting large scatterplot data to rasters. It speeds up plotting of data with millions of points. …

r-scatterpie 0.1.8

This package creates scatterpie plots, especially useful for plotting pies on a map. …

r-scatterplot3d 0.3-42

This package provides an implementation of scatter plots for plotting. a three dimensional point cloud. …

r-sccustomize 0.7.0-1.8414d1f

This is a collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R. …

r-scdblfinder 1.10.0

The scDblFinder package gathers various methods for the detection and handling of doublets/multiplets in single-cell RNA sequencing data (i.e. multiple cells captured within the same droplet or reaction volume). It…

r-scdd 1.20.0

This package implements a method to analyze single-cell RNA-seq data utilizing flexible Dirichlet Process mixture models. Genes with differential distributions of expression are classified into several interesting patterns of differences between two…

r-scde 1.99.2

The SCDE package implements a set of statistical methods for analyzing single-cell RNA-seq data. SCDE fits individual error models for single-cell RNA-seq measurements. These models can then be used for…

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