Packages — R (Page 7 of 61)

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r-dvmisc 1.1.4

This package implements faster versions of base R functions (e.g. mean, standard deviation, covariance, weighted mean), mostly written in C++, along with miscellaneous functions for various purposes (e.g. create the…

r-dygraphs 1.1.1.6

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,…

r-dyn 0.2-9.6

This package provides the dyn class interfaces `ts', `irts', `zoo' and `zooreg' time series classes to `lm', `glm', `loess', `quantreg::rq', `MASS::rlm', `MCMCpack::MCMCregress()', `quantreg::rq()', `randomForest::randomForest()' and other regression functions, allowing those functions to be…

r-dynamictreecut 1.63-1

This package contains methods for the detection of clusters in hierarchical clustering dendrograms. …

r-dyngen 1.0.4

This package provides a multi-modal simulation engine for studying dynamic cellular processes at single-cell resolution. …

r-dynutils 1.0.9

This package provides common functionality for the dynverse (https://dynverse.org) packages. dynverse is created to support the development, execution, and benchmarking of trajectory inference methods. …

r-e1071 1.7-11

This package provides functions for latent class analysis, short time Fourier transform, fuzzy clustering, support vector machines, shortest path computation, bagged clustering, naive Bayes classifier, and more. …

r-ebarrays 2.60.0

EBarrays provides tools for the analysis of replicated/unreplicated microarray data. …

r-ebimage 4.38.0

EBImage provides general purpose functionality for image processing and analysis. In the context of (high-throughput) microscopy-based cellular assays, EBImage offers tools to segment cells and extract quantitative cellular descriptors. This allows…

r-ebseq 1.36.0

This package provides tools for differential expression analysis at both gene and isoform level using RNA-seq data …

r-ecp 3.1.3

This package implements various procedures for finding multiple change-points. Two methods make use of dynamic programming and pruning, with no distributional assumptions other than the existence of certain absolute moments in one…

r-edaseq 2.30.0

This package provides support for numerical and graphical summaries of RNA-Seq genomic read data. Provided within-lane normalization procedures to adjust for GC-content effect (or other gene-level effects) on read counts: loess…

r-edger 3.38.4

This package can do differential expression analysis of RNA-seq expression profiles with biological replication. It implements a range of statistical methodology based on the negative binomial distributions, including empirical Bayes estimation, exact…

r-effects 4.2-2

Graphical and tabular effect displays, e.g., of interactions, for various statistical models with linear predictors. …

r-effectsize 0.7.0.5

This package provides utilities to work with indices of effect size and standardized parameters for a wide variety of models, allowing computation and conversion of indices such as Cohen's d, r, odds,…

r-egg 0.4.5

This package provides miscellaneous functions to help customize ggplot2 objects. High-level functions are provided to post-process ggplot2 layouts and allow alignment between plot panels, as well as setting panel sizes to fixed…

r-elasticnet 1.3

This package provides functions for fitting the entire solution path of the Elastic-Net and also provides functions for estimating sparse Principal Components. The Lasso solution paths can be computed by the…

r-ellipse 0.4.3

This package contains various routines for drawing ellipses and ellipse-like confidence regions, implementing the plots described in Murdoch and Chow (1996), A graphical display of large correlation matrices, The American Statistician 50, 178-180.…

r-ellipsis 0.3.2

In S3 generics, it's useful to take `...' so that methods can have additional arguments. But this flexibility comes at a cost: misspelled arguments will be silently ignored. The `ellipsis'…

r-elliptic 1.4-0

A suite of elliptic and related functions including Weierstrass and Jacobi forms. Also includes various tools for manipulating and visualizing complex functions. …

r-emdbook 1.3.12

This package provides auxiliary functions and data sets for "Ecological Models and Data", a book presenting maximum likelihood estimation and related topics for ecologists (ISBN 978-0-691-12522-0). …

r-emdist 0.3-2

This package provides tools to calculate the Earth Mover's Distance (EMD). …

r-emmeans 1.8.1-1

This package provides tools to obtain "estimated marginal means" (EMMs) for many linear, generalized linear, and mixed models. It can be used to compute contrasts or linear functions of EMMs, trends,…

r-emojifont 0.5.5

This package enables the use of emoji and the Font Awesome glyphs in both base and ggplot2 graphics. …

r-emplik 1.2

This package provides empirical likelihood ratio tests for means/quantiles/hazards from possibly censored and/or truncated data. It also does regression. …

r-energy 1.7-10

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…

r-english 1.2-6

Allow numbers to be presented in an English language version, one, two, three, ... Ordinals are also available, first, second, third, ... and indefinite article choice, "a" or "an". …

r-enrichplot 1.16.2

The enrichplot package implements several visualization methods for interpreting functional enrichment results obtained from ORA or GSEA analyses. All the visualization methods are developed based on ggplot2 graphics. …

r-enrichr 3.1

This package provides an R interface to all Enrichr databases, a web-based tool for analyzing gene sets and returns any enrichment of common annotated biological functions. …

r-ensdb-hsapiens-v75 2.99.0

This package exposes an annotation database generated from Ensembl. …

r-ensdb-hsapiens-v86 2.99.0

This package exposes an annotation database generated from Ensembl. …

r-ensdb-mmusculus-v79 2.99.0

This package exposes an annotation database generated from Ensembl. …

r-ensembldb 2.20.2

The package provides functions to create and use transcript-centric annotation databases/packages. The annotation for the databases are directly fetched from Ensembl using their Perl API. The functionality and data is…

r-entropy 1.3.1

This package implements various estimators of entropy, such as the shrinkage estimator by Hausser and Strimmer, the maximum likelihood and the Millow-Madow estimator, various Bayesian estimators, and the Chao-Shen estimator. It…

r-epi 2.47

This package provides functions for demographic and epidemiological analysis in the Lexis diagram, i.e. register and cohort follow-up data, in particular representation, manipulation and simulation of multistate data - the Lexis…

r-erm 1.0-2

This package provides tools to fit "Rasch models" (RM), "linear logistic test models" (LLTM), "rating scale model" (RSM), "linear rating scale models" (LRSM), "partial credit models" (PCM), and "linear partial credit models"…

r-erma 1.12.0

The epigenomics road map describes locations of epigenetic marks in DNA from a variety of cell types. Of interest are locations of histone modifications, sites of DNA methylation, and regions of…

r-esc 0.5.1

Implementation of the web-based 'Practical Meta-Analysis Effect Size Calculator' (http://www.campbellcollaboration.org/escalc/html/EffectSizeCalculator-Home.php) from David B. Wilson in R. Based on the input, the effect size can be returned as standardized mean difference, Cohen's…

r-estimability 1.4.1

Provides tools for determining estimability of linear functions of regression coefficients, and `epredict' methods that handle non-estimable cases correctly. …

r-etm 1.1.1

The "empirical transition matrix" (etm) package estimates the matrix of transition probabilities for any time-inhomogeneous multistate model with finite state space using the Aalen-Johansen estimator. …

r-etrunct 0.1

This package computes moments of univariate truncated T distribution. There is only one exported function, `e_trunct', which should be seen for details. …

r-europepmc 0.4.1

This package provides an R Client for the Europe PubMed Central RESTful Web Service (https://europepmc.org/RestfulWebService). It gives access to both metadata on life science literature and open access full texts. …

r-evaluate 0.16

This package provides tools that allow you to recreate the parsing, evaluation and display of R code, with enough information that you can accurately recreate what happens at the command line. …

r-exact 3.1

Performs unconditional exact tests and power calculations for 2x2 contingency tables. For comparing two independent proportions, performs Barnard's test (1945) (doi:10.1038/156177a0) using the original CSM test (Barnard (1947) (doi:10.1093/biomet/34.1-2.123)), using Fisher's p-value…

r-exactextractr 0.9.0

This package provides a replacement for the `extract' function from the `raster' package that is suitable for extracting raster values using `sf' polygons. …

r-exactranktests 0.8-35

This package computes exact conditional p-values and quantiles using an implementation of the Shift-Algorithm by Streitberg & Roehmel. …

r-excelr 0.4.0

This package provides an R interface to the jExcel library to create web-based interactive tables and spreadsheets compatible with spreadsheet software. …

r-experimenthub 2.4.0

This package provides a client for the Bioconductor ExperimentHub web resource. ExperimentHub provides a central location where curated data from experiments, publications or training courses can be accessed. Each resource has…

r-expint 0.1-7

This package provides the exponential integrals `E_1(x)', `E_2(x)', `E_n(x)' and `Ei(x)', and the incomplete gamma function `G(a, x)' defined for negative values of its first argument. The package also gives easy…

r-expm 0.999-6

This package provides tools for the computation of the matrix exponential, logarithm, square root, and related quantities. …

r-exposition 2.8.23

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…

r-extradistr 1.9.1

This package implements density, distribution functions, quantile functions and random generation functions for a large number of univariate and multivariate distributions. …

r-extrafont 0.18

The extrafont package makes it easier to use fonts other than the basic PostScript fonts that R uses. Fonts that are imported into extrafont can be used with PDF or PostScript…

r-extrafontdb 1.0

This package holds the database for the `extrafont' package. …

r-extremes 2.1-2

ExtRemes is a suite of functions for carrying out analyses on the extreme values of a process of interest; be they block maxima over long blocks or excesses over a high threshold. …

r-eyelinker 0.2.1

Imports plain-text ASC data files from EyeLink eye trackers into (relatively) tidy data frames for analysis and visualization. …

r-ez 4.4-0

Facilitates easy analysis of factorial experiments, including purely within-Ss designs (a.k.a. "repeated measures"), purely between-Ss designs, and mixed within-and-between-Ss designs. The functions in this package aim to provide simple, intuitive and…

r-factoextra 1.0.7

This package provides some easy-to-use functions to extract and visualize the output of multivariate data analyses, including `PCA' (Principal Component Analysis), `CA' (Correspondence Analysis), `MCA' (Multiple Correspondence Analysis), `FAMD' (Factor Analysis of Mixed…

r-factominer 2.6

This package provides exploratory data analysis methods to summarize, visualize and describe datasets. The main principal component methods are available, those with the largest potential in terms of applications: principal component analysis…

r-fail 1.3

This package provides a more comfortable interface to work with R data or source files in a key-value fashion. …

r-fansi 1.0.3

This package provides counterparts to R string manipulation functions that account for the effects of ANSI text formatting control sequences. …

r-farver 2.1.1

The encoding of color can be handled in many different ways, using different color spaces. As different color spaces have different uses, efficient conversion between these representations are important. This…

r-fastcluster 1.2.3

This package implements fast hierarchical, agglomerative clustering routines. Part of the functionality is designed as drop-in replacement for existing routines: `linkage()' in the SciPy package `scipy.cluster.hierarchy', `hclust()' in R's `stats' package, and the…

r-fasterize 1.0.3

This package provides a drop-in replacement for `rasterize' from the `raster' package that takes sf-type objects, and is much faster. There is support for the main options provided by the `rasterize'…

r-fastghquad 1.0.1

This package implements numerically-stable Gauss-Hermite quadrature rules and utility functions for adaptive GH quadrature. …

r-fastica 1.2-3

This package provides an implementation of the FastICA algorithm to perform "independent component analysis" (ICA) and projection pursuit. …

r-fastmap 1.1.0

This package provides a fast implementation of a key-value store. Environments are commonly used as key-value stores, but every time a new key is used, it is added to R's global…

r-fastmatch 1.1-3

This package provides a fast `match' replacement for cases that require repeated look-ups. It is slightly faster that R's built-in `match' function on first match against a table, but extremely fast…

r-fastseg 1.42.0

Fastseg implements a very fast and efficient segmentation algorithm. It can segment data from DNA microarrays and data from next generation sequencing for example to detect copy number segments. Further…

r-fastshap 0.0.7

This package computes fast (relative to other implementations) approximate Shapley values for any supervised learning model. Shapley values help to explain the predictions from any black box model using ideas from…

r-fauxpas 0.5.0

This package provides HTTP error helpers. Methods are included for general purpose HTTP error handling, as well as individual methods for every HTTP status code, both via status code numbers as…

r-fcscan 1.10.0

This package is used to detect combination of genomic coordinates falling within a user defined window size along with user defined overlap between identified neighboring clusters. It can be used for…

r-fda 6.0.5

These functions were developed to support functional data analysis as described in Ramsay, J. O. and Silverman, B. W. (2005) Functional Data Analysis. The package includes data…

r-fdb-infiniummethylation-hg19 2.2.0

This is an annotation package for Illumina Infinium DNA methylation probes. It contains the compiled HumanMethylation27 and HumanMethylation450 annotations. …

r-fdrtool 1.2.17

This package provides tools to estimate tail area-based false discovery rates as well as local false discovery rates for a variety of null models (p-values, z-scores, correlation coefficients, t-scores). The proportion…

r-fds 1.8

This package contains a list of functional time series, sliced functional time series, and functional data sets. Functional time series is a special type of functional data observed over time. …

r-feather 0.3.5

Read and write feather files, a lightweight binary columnar data store designed for maximum speed. …

r-feature 1.2.15

The feature package contains functions to display and compute kernel density estimates, significant gradient and significant curvature regions. Significant gradient and/or curvature regions often correspond to significant features (e.g. local modes). …

r-ff 4.0.7

This package provides data structures that are stored on disk but behave (almost) as if they were in RAM by transparently mapping only a section in main memory. …

r-ffbase 0.13.3

This package extends the out of memory vectors of `ff' with statistical functions and other utilities to ease their usage. …

r-fftwtools 0.9-11

This package provides a wrapper for several FFTW functions. It provides access to the two-dimensional FFT, the multivariate FFT, and the one-dimensional real to complex FFT using the FFTW3 library. …

r-fgsea 1.22.0

The package implements an algorithm for fast gene set enrichment analysis. Using the fast algorithm makes more permutations and gets more fine grained p-values, which allows using accurate standard approaches to…

r-fgui 1.0-8

Rapidly create a GUI for a function you created by automatically creating widgets for arguments of the function. This package automatically parses help routines for context-sensitive help to these arguments. …

r-fhtest 1.5

This package provides functions to compare two or more survival curves with: * The Fleming-Harrington test for right-censored data based on permutations and on…

r-fields 14.1

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…

r-filehash 2.4-3

This package implements a simple key-value style database where character string keys are associated with data values that are stored on the disk. A simple interface is provided for inserting, retrieving,…

r-filelock 1.0.2

This library lets you place an exclusive or shared lock on a file using the appropriate system call provided by the underlying operating system. …

r-filematrix 1.3

This package provides an interface for working with large matrices stored in files, not in computer memory. It supports multiple non-character data types (double, integer, logical and raw) of various sizes…

r-findpython 1.0.7

This package was designed to find an acceptable Python binary that matches version and feature constraints. …

r-fingerprint 3.5.7

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…

r-fit-models 0.64

The `fit.models' function and its associated methods (coefficients, print, summary, plot, etc.) were originally provided in the `robust' package to compare robustly and classically fitted model objects. The aim of the…

r-fitdistrplus 1.1-8

This package extends the `fitdistr' function of the MASS package with several functions to help the fit of a parametric distribution to non-censored or censored data. Censored data may contain left-censored,…

r-fithic 1.22.0

Fit-Hi-C is a tool for assigning statistical confidence estimates to intra-chromosomal contact maps produced by genome-wide genome architecture assays such as Hi-C. …

r-fivethirtyeight 0.1.0

This R package provides access to the code and data sets published by the statistics blog FiveThirtyEight. …

r-flare 1.7.0.1

This package provides implementations of a family of Lasso variants including Dantzig Selector, LAD Lasso, SQRT Lasso, Lq Lasso for estimating high dimensional sparse linear models. …

r-flashclust 1.01-2

This package provides a fast implementation of hierarchical clustering. …

r-flexclust 1.4-1

The main function `kcca' implements a general framework for k-centroids cluster analysis supporting arbitrary distance measures and centroid computation. Further cluster methods include hard competitive learning, neural gas, and QT clustering. There…

r-flexdashboard 0.6.0

This package provides an R Markdown format for converting an R Markdown document to a grid-oriented dashboard. The dashboard flexibly adapts the size of its components to the containing web page. …

r-flexmix 2.3-18

This package implements a general framework for finite mixtures of regression models using the EM algorithm. FlexMix provides the E-step and all data handling, while the M-step can be supplied by…

r-flexsurv 2.2

This package provides flexible parametric models for time-to-event data, including the Royston-Parmar spline model, generalized gamma and generalized F distributions. Any user-defined parametric distribution can be fitted, given at least an R…

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