Package Index ![[R logo]](Rlogo.svg)
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Packages in the standard library
A B C D E F G H I J K L M N O P R S T U V W X Y Z
| abind | Combine Multidimensional Arrays |
| annotate | Annotation for microarrays |
| AnnotationDbi | Manipulation of SQLite-based annotations in Bioconductor |
| ArchR | Analyzing single-cell regulatory chromatin in R. |
| askpass | Password Entry Utilities for R, Git, and SSH |
| base | The R Base Package |
| base64enc | Tools for base64 encoding |
| BH | Boost C++ Header Files |
| Biobase | Biobase: Base functions for Bioconductor |
| BiocGenerics | S4 generic functions used in Bioconductor |
| BiocIO | Standard Input and Output for Bioconductor Packages |
| BiocManager | Access the Bioconductor Project Package Repository |
| BiocParallel | Bioconductor facilities for parallel evaluation |
| Biostrings | Efficient manipulation of biological strings |
| bit | Classes and Methods for Fast Memory-Efficient Boolean Selections |
| bit64 | A S3 Class for Vectors of 64bit Integers |
| bitops | Bitwise Operations |
| blob | A Simple S3 Class for Representing Vectors of Binary Data ('BLOBS') |
| brew | Templating Framework for Report Generation |
| brio | Basic R Input Output |
| BSgenome | Software infrastructure for efficient representation of full genomes and their SNPs |
| bslib | Custom 'Bootstrap' 'Sass' Themes for 'shiny' and 'rmarkdown' |
| cachem | Cache R Objects with Automatic Pruning |
| Cairo | R Graphics Device using Cairo Graphics Library for Creating High-Quality Bitmap (PNG, JPEG, TIFF), Vector (PDF, SVG, PostScript) and Display (X11 and Win32) Output |
| callr | Call R from R |
| caTools | Tools: Moving Window Statistics, GIF, Base64, ROC AUC, etc |
| chromVAR | Chromatin Variation Across Regions |
| circlize | Circular Visualization |
| cli | Helpers for Developing Command Line Interfaces |
| clipr | Read and Write from the System Clipboard |
| clue | Cluster Ensembles |
| cluster | "Finding Groups in Data": Cluster Analysis Extended Rousseeuw et al. |
| CNEr | CNE Detection and Visualization |
| codetools | Code Analysis Tools for R |
| colorspace | A Toolbox for Manipulating and Assessing Colors and Palettes |
| commonmark | High Performance CommonMark and Github Markdown Rendering in R |
| compiler | The R Compiler Package |
| ComplexHeatmap | Make Complex Heatmaps |
| cowplot | Streamlined Plot Theme and Plot Annotations for 'ggplot2' |
| cpp11 | A C++11 Interface for R's C Interface |
| crayon | Colored Terminal Output |
| credentials | Tools for Managing SSH and Git Credentials |
| crosstalk | Inter-Widget Interactivity for HTML Widgets |
| curl | A Modern and Flexible Web Client for R |
| data.table | Extension of `data.frame` |
| datasets | The R Datasets Package |
| DBI | R Database Interface |
| DelayedArray | A unified framework for working transparently with on-disk and in-memory array-like datasets |
| deldir | Delaunay Triangulation and Dirichlet (Voronoi) Tessellation |
| desc | Manipulate DESCRIPTION Files |
| devtools | Tools to Make Developing R Packages Easier |
| diffobj | Diffs for R Objects |
| digest | Create Compact Hash Digests of R Objects |
| DirichletMultinomial | Dirichlet-Multinomial Mixture Model Machine Learning for Microbiome Data |
| doParallel | Foreach Parallel Adaptor for the 'parallel' Package |
| dotCall64 | Enhanced Foreign Function Interface Supporting Long Vectors |
| downlit | Syntax Highlighting and Automatic Linking |
| dplyr | A Grammar of Data Manipulation |
| dqrng | Fast Pseudo Random Number Generators |
| DT | A Wrapper of the JavaScript Library 'DataTables' |
| ellipsis | Tools for Working with ... |
| evaluate | Parsing and Evaluation Tools that Provide More Details than the Default |
| fansi | ANSI Control Sequence Aware String Functions |
| farver | High Performance Colour Space Manipulation |
| fastDummies | Fast Creation of Dummy (Binary) Columns and Rows from Categorical Variables |
| fastmap | Fast Data Structures |
| fitdistrplus | Help to Fit of a Parametric Distribution to Non-Censored or Censored Data |
| FNN | Fast Nearest Neighbor Search Algorithms and Applications |
| fontawesome | Easily Work with 'Font Awesome' Icons |
| foreach | Provides Foreach Looping Construct |
| formatR | Format R Code Automatically |
| fs | Cross-Platform File System Operations Based on 'libuv' |
| futile.logger | A Logging Utility for R |
| futile.options | Futile Options Management |
| future | Unified Parallel and Distributed Processing in R for Everyone |
| future.apply | Apply Function to Elements in Parallel using Futures |
| generics | Common S3 Generics not Provided by Base R Methods Related to Model Fitting |
| GenomeInfoDb | Utilities for manipulating chromosome names, including modifying them to follow a particular naming style |
| GenomeInfoDbData | Species and taxonomy ID look up tables used by GenomeInfoDb |
| GenomicAlignments | Representation and manipulation of short genomic alignments |
| GenomicRanges | Representation and manipulation of genomic intervals |
| gert | Simple Git Client for R |
| GetoptLong | Parsing Command-Line Arguments and Simple Variable Interpolation |
| ggplot2 | Create Elegant Data Visualisations Using the Grammar of Graphics |
| ggrepel | Automatically Position Non-Overlapping Text Labels with 'ggplot2' |
| ggridges | Ridgeline Plots in 'ggplot2' |
| gh | 'GitHub' 'API' |
| gitcreds | Query 'git' Credentials from 'R' |
| GlobalOptions | Generate Functions to Get or Set Global Options |
| globals | Identify Global Objects in R Expressions |
| glue | Interpreted String Literals |
| GO.db | A set of annotation maps describing the entire Gene Ontology |
| goftest | Classical Goodness-of-Fit Tests for Univariate Distributions |
| gplots | Various R Programming Tools for Plotting Data |
| graphics | The R Graphics Package |
| grDevices | The R Graphics Devices and Support for Colours and Fonts |
| grid | The Grid Graphics Package |
| gridExtra | Miscellaneous Functions for "Grid" Graphics |
| gtable | Arrange 'Grobs' in Tables |
| gtools | Various R Programming Tools |
| harmony | Fast, Sensitive, and Accurate Integration of Single Cell Data |
| here | A Simpler Way to Find Your Files |
| highr | Syntax Highlighting for R Source Code |
| hms | Pretty Time of Day |
| htmltools | Tools for HTML |
| htmlwidgets | HTML Widgets for R |
| httpuv | HTTP and WebSocket Server Library |
| httr | Tools for Working with URLs and HTTP |
| httr2 | Perform HTTP Requests and Process the Responses |
| ica | Independent Component Analysis |
| igraph | Network Analysis and Visualization |
| ini | Read and Write '.ini' Files |
| IRanges | Foundation of integer range manipulation in Bioconductor |
| irlba | Fast Truncated Singular Value Decomposition and Principal Components Analysis for Large Dense and Sparse Matrices |
| isoband | Generate Isolines and Isobands from Regularly Spaced Elevation Grids |
| iterators | Provides Iterator Construct |
| jquerylib | Obtain 'jQuery' as an HTML Dependency Object |
| jsonlite | A Simple and Robust JSON Parser and Generator for R |
| KEGGREST | Client-side REST access to the Kyoto Encyclopedia of Genes and Genomes (KEGG) |
| KernSmooth | Functions for Kernel Smoothing Supporting Wand & Jones (1995) |
| knitr | A General-Purpose Package for Dynamic Report Generation in R |
| labeling | Axis Labeling |
| lambda.r | Modeling Data with Functional Programming |
| later | Utilities for Scheduling Functions to Execute Later with Event Loops |
| lattice | Trellis Graphics for R |
| lazyeval | Lazy (Non-Standard) Evaluation |
| leiden | R Implementation of Leiden Clustering Algorithm |
| lifecycle | Manage the Life Cycle of your Package Functions |
| listenv | Environments Behaving (Almost) as Lists |
| lmtest | Testing Linear Regression Models |
| magrittr | A Forward-Pipe Operator for R |
| MASS | Support Functions and Datasets for Venables and Ripley's MASS |
| Matrix | Sparse and Dense Matrix Classes and Methods |
| MatrixGenerics | S4 Generic Summary Statistic Functions that Operate on Matrix-Like Objects |
| matrixStats | Functions that Apply to Rows and Columns of Matrices (and to Vectors) |
| memoise | 'Memoisation' of Functions |
| methods | Formal Methods and Classes |
| mgcv | Mixed GAM Computation Vehicle with Automatic Smoothness Estimation |
| mime | Map Filenames to MIME Types |
| miniUI | Shiny UI Widgets for Small Screens |
| motifmatchr | Fast Motif Matching in R |
| munsell | Utilities for Using Munsell Colours |
| nabor | Wraps 'libnabo', a Fast K Nearest Neighbour Library for Low Dimensions |
| nlme | Linear and Nonlinear Mixed Effects Models |
| openssl | Toolkit for Encryption, Signatures and Certificates Based on OpenSSL |
| parallel | Support for Parallel Computation in R |
| parallelly | Enhancing the 'parallel' Package |
| patchwork | The Composer of Plots |
| pbapply | Adding Progress Bar to '*apply' Functions |
| pillar | Coloured Formatting for Columns |
| pkgbuild | Find Tools Needed to Build R Packages |
| pkgconfig | Private Configuration for 'R' Packages |
| pkgdown | Make Static HTML Documentation for a Package |
| pkgload | Simulate Package Installation and Attach |
| plogr | The 'plog' C++ Logging Library |
| plotly | Create Interactive Web Graphics via 'plotly.js' |
| plyr | Tools for Splitting, Applying and Combining Data |
| png | Read and write PNG images |
| polyclip | Polygon Clipping |
| poweRlaw | Analysis of Heavy Tailed Distributions |
| pracma | Practical Numerical Math Functions |
| praise | Praise Users |
| presto | Fast Functions for Differential Expression using Wilcox and AUC |
| prettyunits | Pretty, Human Readable Formatting of Quantities |
| processx | Execute and Control System Processes |
| profvis | Interactive Visualizations for Profiling R Code |
| progress | Terminal Progress Bars |
| progressr | An Inclusive, Unifying API for Progress Updates |
| promises | Abstractions for Promise-Based Asynchronous Programming |
| ps | List, Query, Manipulate System Processes |
| purrr | Functional Programming Tools |
| pwalign | Perform pairwise sequence alignments |
| R.methodsS3 | S3 Methods Simplified |
| R.oo | R Object-Oriented Programming with or without References |
| R.utils | Various Programming Utilities |
| R6 | Encapsulated Classes with Reference Semantics |
| ragg | Graphic Devices Based on AGG |
| RANN | Fast Nearest Neighbour Search (Wraps ANN Library) Using L2 Metric |
| rappdirs | Application Directories: Determine Where to Save Data, Caches, and Logs |
| rcmdcheck | Run 'R CMD check' from 'R' and Capture Results |
| RColorBrewer | ColorBrewer Palettes |
| Rcpp | Seamless R and C++ Integration |
| RcppAnnoy | 'Rcpp' Bindings for 'Annoy', a Library for Approximate Nearest Neighbors |
| RcppArmadillo | 'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra Library |
| RcppEigen | 'Rcpp' Integration for the 'Eigen' Templated Linear Algebra Library |
| RcppHNSW | 'Rcpp' Bindings for 'hnswlib', a Library for Approximate Nearest Neighbors |
| RcppProgress | An Interruptible Progress Bar with OpenMP Support for C++ in R Packages |
| RcppTOML | 'Rcpp' Bindings to Parser for "Tom's Obvious Markup Language" |
| RCurl | General Network (HTTP/FTP/...) Client Interface for R |
| readr | Read Rectangular Text Data |
| rematch2 | Tidy Output from Regular Expression Matching |
| remotes | R Package Installation from Remote Repositories, Including 'GitHub' |
| reshape2 | Flexibly Reshape Data: A Reboot of the Reshape Package |
| restfulr | R Interface to RESTful Web Services |
| reticulate | Interface to 'Python' |
| rhandsontable | Interface to the 'Handsontable.js' Library |
| rhdf5 | R Interface to HDF5 |
| rhdf5filters | HDF5 Compression Filters |
| Rhdf5lib | hdf5 library as an R package |
| RhpcBLASctl | Control the Number of Threads on 'BLAS' |
| Rhtslib | HTSlib high-throughput sequencing library as an R package |
| rjson | JSON for R |
| rlang | Functions for Base Types and Core R and 'Tidyverse' Features |
| rmarkdown | Dynamic Documents for R |
| ROCR | Visualizing the Performance of Scoring Classifiers |
| roxygen2 | In-Line Documentation for R |
| rprojroot | Finding Files in Project Subdirectories |
| Rsamtools | Binary alignment (BAM), FASTA, variant call (BCF), and tabix file import |
| RSpectra | Solvers for Large-Scale Eigenvalue and SVD Problems |
| RSQLite | SQLite Interface for R |
| rstudioapi | Safely Access the RStudio API |
| rtracklayer | R interface to genome annotation files and the UCSC genome browser |
| Rtsne | T-Distributed Stochastic Neighbor Embedding using a Barnes-Hut Implementation |
| rversions | Query 'R' Versions, Including 'r-release' and 'r-oldrel' |
| S4Arrays | Foundation of array-like containers in Bioconductor |
| S4Vectors | Foundation of vector-like and list-like containers in Bioconductor |
| sass | Syntactically Awesome Style Sheets ('Sass') |
| scales | Scale Functions for Visualization |
| scattermore | Scatterplots with More Points |
| sctransform | Variance Stabilizing Transformations for Single Cell UMI Data |
| seqLogo | Sequence logos for DNA sequence alignments |
| sessioninfo | R Session Information |
| Seurat | Tools for Single Cell Genomics |
| SeuratObject | Data Structures for Single Cell Data |
| shape | Functions for Plotting Graphical Shapes, Colors |
| shiny | Web Application Framework for R |
| shinythemes | Themes for Shiny |
| sitmo | Parallel Pseudo Random Number Generator (PPRNG) 'sitmo' Header Files |
| snow | Simple Network of Workstations |
| sourcetools | Tools for Reading, Tokenizing and Parsing R Code |
| sp | Classes and Methods for Spatial Data |
| spam | SPArse Matrix |
| SparseArray | High-performance sparse data representation and manipulation in R |
| spatstat.data | Datasets for 'spatstat' Family |
| spatstat.explore | Exploratory Data Analysis for the 'spatstat' Family |
| spatstat.geom | Geometrical Functionality of the 'spatstat' Family |
| spatstat.random | Random Generation Functionality for the 'spatstat' Family |
| spatstat.sparse | Sparse Three-Dimensional Arrays and Linear Algebra Utilities |
| spatstat.utils | Utility Functions for 'spatstat' |
| splines | Regression Spline Functions and Classes |
| stats | The R Stats Package |
| stats4 | Statistical Functions using S4 Classes |
| stringi | Fast and Portable Character String Processing Facilities |
| stringr | Simple, Consistent Wrappers for Common String Operations |
| SummarizedExperiment | SummarizedExperiment container |
| survival | Survival Analysis |
| sys | Powerful and Reliable Tools for Running System Commands in R |
| systemfonts | System Native Font Finding |
| tcltk | Tcl/Tk Interface |
| tensor | Tensor product of arrays |
| testthat | Unit Testing for R |
| textshaping | Bindings to the 'HarfBuzz' and 'Fribidi' Libraries for Text Shaping |
| TFBSTools | Software Package for Transcription Factor Binding Site (TFBS) Analysis |
| TFMPvalue | Efficient and Accurate P-Value Computation for Position Weight Matrices |
| tibble | Simple Data Frames |
| tidyr | Tidy Messy Data |
| tidyselect | Select from a Set of Strings |
| tinytex | Helper Functions to Install and Maintain TeX Live, and Compile LaTeX Documents |
| tools | Tools for Package Development |
| tzdb | Time Zone Database Information |
| UCSC.utils | Low-level utilities to retrieve data from the UCSC Genome Browser |
| urlchecker | Run CRAN URL Checks from Older R Versions |
| usethis | Automate Package and Project Setup |
| utf8 | Unicode Text Processing |
| utils | The R Utils Package |
| uwot | The Uniform Manifold Approximation and Projection (UMAP) Method for Dimensionality Reduction |
| vctrs | Vector Helpers |
| viridisLite | Colorblind-Friendly Color Maps (Lite Version) |
| vroom | Read and Write Rectangular Text Data Quickly |
| waldo | Find Differences Between R Objects |
| whisker | {{mustache}} for R, Logicless Templating |
| withr | Run Code 'With' Temporarily Modified Global State |
| xfun | Supporting Functions for Packages Maintained by 'Yihui Xie' |
| XML | Tools for Parsing and Generating XML Within R and S-Plus |
| xml2 | Parse XML |
| xopen | Open System Files, 'URLs', Anything |
| xtable | Export Tables to LaTeX or HTML |
| XVector | Foundation of external vector representation and manipulation in Bioconductor |
| yaml | Methods to Convert R Data to YAML and Back |
| zip | Cross-Platform 'zip' Compression |
| zlibbioc | An R packaged zlib-1.2.5 |
| zoo | S3 Infrastructure for Regular and Irregular Time Series (Z's Ordered Observations) |