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Awesome R Package Development Tools

Indrajeet Patil

A curated list of awesome tools to assist 📦 development in R programming language.

Tip

What is included?

  • Only tools helpful for package development are included, and not other resources (e.g. books).
  • All relevant tools are included, irrespective of their availability on CRAN/Bioconductor.
  • Tools which are part of publicly archived/retired GitHub repositories are not included.

If you wish to suggest any additional tools, please make a PR or create an issue here.

Code of Conduct

Please note that the awesome-r-pkgtools project is released with a Contributor Code of Conduct. By contributing to this project, you agree to abide by its terms.

Swiss army knives 🛠

Tools useful across all stages of package development (some of these are meta-packages and their component packages are also included in respective sections for the sake of completeness), irrespective of whether the package is meant to be submitted to CRAN or Bioconductor.

Package templates 💀

Generic

RMarkdown-based

  • {fusen} (to build a package from RMarkdown files)

  • {litr} (to write a complete R package in a single R markdown document)

Shiny

  • {golem} (framework for building shiny applications)

  • {leprechaun} (leaner framework for building shiny applications)

  • {rhino} (a framework to build high quality, enterprise-grade Shiny apps at speed)

Meta-packages

Naming things 🧸

  • {available} (to check if a package name is available to use)

  • {collidr} (to check for namespace collisions)

  • {changer} (to change the name of an existing R package)

Working with package components

  • {rprojroot} (accessing files w.r.t. package root directory)

  • {desc} (manipulating DESCRIPTION files)

  • {withr} (to manage package side effects by safely and temporarily modifying global states)

  • {pkgload} (to simulate the process of installing and loading a package)

  • {pkgbuild} (to find tools needed to build packages)

Package configuration

  • {config} (to manage environment specific configuration values)

  • {dotenv} (to load environment variables from .env files)

  • {options} (provides simple mechanisms for defining and interpreting package options)

  • {potions} (to update and retrieve options, either in the workspace or during package development, without overwriting global options)

Package management tools

  • {pkgcache} (to cache ‘CRAN’-like metadata and packages)

Documentation 📚

Manual

  • {roxygen2} (to generate R package documentation from inline R comments)

  • {Rd2roxygen} (in case you inherit a project where documentation was not written using {roxygen2})

  • {rdoxygen} (to create Doxygen documentation for R package C++ code)

  • {roxyglobals} (to generate global variables with {roxygen2} documentation)

  • {sinew} (generate {roxygen2} skeletons)

  • {autoimport} (to automatically generate @importFrom roxygen tags from R files)

  • {roclang} (helpers for diffusing content across function documentation)

  • {Rdpack} (for inserting references, figures, and evaluated examples in Rd docs)

  • {roxygen2md} (to allow Markdown syntax usage in {roxygen2} documentation)

  • {rd2markdown} (to convert .Rd package documentation files into markdown files)

  • {rd2list} (converts Rd docs to a human-readable list)

  • {pasteAsComment} (RStudio addin for pasting copied code as roxygen comment)

  • roxygen2Comment (Rstudio addin for adding and remove {roxygen2} comment)

Math rendering in HTML/PDF manual

  • {katex} (to convert latex math expressions to HTML for use in package manual pages)

  • {mathjaxr} (provides ‘MathJax’ and macros to enable its use within Rd files for rendering equations in the HTML help files)

  • {mathml} (translates R expressions to ‘MathML’ or ‘MathJax’ so that they can be rendered in HTML manual and Shiny apps)

Vignettes

  • {knitr} (a general-purpose tool for dynamic report generation to be used as a vignette builder for R package vignettes)

  • {rmarkdown} (to convert R Markdown documents to a variety of formats)

  • {quarto} (provides R interface to frequently used operations in the Quarto CLI)

  • {R.rsp} (for incorporating static and dynamic vignettes)

  • {RmdConcord} (to provide support for concordances in R Markdown files)

  • {prettydoc} (creates lightweight yet pretty vignettes)

  • {readme2vignette} (to convert README to vignette during package installation)

Tutorials

  • {learnr} (to turn any R Markdown document into an interactive tutorial)

Website

  • {pkgdown} (static website for package documentation)

  • {gitdown} (software changes as a gitbook)

  • {altdoc} (use docute, docsify, or MkDocs to create a static website for package documentation)

Translation

  • {potools} (for translating messages and checking the “health” of the messaging corpus)

Lifecycle

  • {lifecycle} (to manage the life cycle of exported functions)

Badges and stickers

  • {badger} (to query information and generate badges for use in README)

  • {badgen} (provides bindings to badgen to generate beautiful ‘svg’ badges in R without internet access)

  • {hexSticker} (helper functions for creating reproducible hexagon sticker purely in R)

  • {hexFinder} (to scavenge the web for possible hex logos for packages)

  • hexwall (to create a wall of hexstickers)

Presentation

  • {xaringan} (an RMarkdown output format for remark.js slides)

Book

  • {bookdown} (authoring framework for books and technical documents with R Markdown)

Change log and versioning

  • {fledge} (to streamline the process of updating change logs and versioning R packages developed in git repositories)

  • {newsmd} (utilities to add updates to the NEWS.md file)

  • {autonewsmd} (to auto-generate change log using conventional commits)

Documentation quality ✒️

Logging 📝

  • {logger} (provides a flexible and extensible logging framework for R)

  • {loggit} (effortless newline-delimited JSON logger, with two primary log-writing interfaces)

  • {log4r} (logging in R based on the widely-emulated ‘log4j’ system and etymology)

  • {lgr} (a flexible, feature-rich yet light-weight logging framework based on ‘R6’ classes)

  • {rsyslog} (write messages to the ‘syslog’ system logger API)

  • {logging} (pure R implementation of the ubiquitous ‘log4j’ package)

  • {lumberjack} (to log changes in data)

Unit testing 🧪

Generic R Packages

  • {testthat} (a testing framework for R that is easy to learn and use; also provides snapshot testing)

  • {patrick} (for parameterized unit testing with {testthat})

  • {testdat} (a family of functions and reporting tools focused on checking of data)

  • {tinytest} (zero-dependency unit testing framework that installs tests with the package)

  • {tinysnapshot} (snapshots for unit tests using the {tinytest} framework)

  • {tinytest2JUnit} (to convert {tinytest} output to JUnit XML needed by CI/CD)

  • {checkmate.tinytest} (additional expectations for {tinytest} framework)

  • {RUnit} (a standard unit testing framework, with additional code inspection and report generation tools)

  • {testit} (a simple package for testing R packages)

  • {realtest} (a framework unit testing that distinguishes between expected, acceptable, current, fallback, ideal, or regressive behaviours)

  • {roxytest} (to inline {testthat} tests with {roxygen2})

  • {doctest} (to write {testthat} tests by adding {roxygen2} tags)

  • {exampletestr} (tests based on package examples)

  • {roxut} (to write the unit tests in the same file as the function)

  • {unitizer} (simplifies regression tests by comparing objects produced by test code with earlier versions of those same objects)

  • {r-hedgehog} (property based testing)

  • {autotest} (automatic mutation testing of R packages)

  • {cucumber} (an implementation of the Cucumber testing framework in R)

  • {quickcheck} (provides property-based testing in {testthat} framework)

Web/database applications

  • {httptest}/{httptest2} (a test environment for HTTP requests in R)

  • {webfakes} (to fake web apps for HTTP testing)

  • {vcr} (to record HTTP requests and responses on disk and replay them for the unit tests)

  • {dittodb} (makes testing against databases easy)

Visual regression testing

  • {vdiffr} (for visual regression testing with {testthat})

  • {gdiff} (for performing graphical difference different package or R versions)

Mock testing

  • {mockthat} (provides a way to mock package function for unit testing, while coping with S3 dispatch)

  • {mockr} (provides a way to mock package function for unit testing)

  • {mockery} (provides a way to mock package function for unit testing and can be used with any testing framework)

Mutation testing

Markdown documents

  • {pandoc} (to check Markdown documents across various version of Pandoc)

Shiny applications

Helpers for testing frameworks

  • {testthis} (RStudio addins for working with files that contain tests)

  • {xpectr} (builds unit tests with the {testthat} package by providing tools for generating expectations)

  • {testdown} (turn {testthat} results into a {bookdown} project)

  • {ttdo} (provides ‘diff’-style comparison of R objects for {tinytest} framework)

Code/Document Formatting 🧽

  • {styler} (to format code according to a style guide)

  • {stylermd} (to format text in Markdown documents)

  • {formatR} (to format R source code)

  • {RFormatter} (extension of {formatR} with slightly improved heuristics)

  • {grkstyle} (extension package for {styler} that supports author’s personal code style preferences)

  • {codegrip} (addin for RStudio IDE to reshape R code and navigate across syntactic constructs)

  • {BiocStyle} (provides standard formatting styles for Bioconductor PDF and HTML documents)

  • AlignAssign (RStudio addin that aligns the assignment operators within a highlighted area)

  • {snakecase} (helpful for having consistent case while naming objects in the package)

  • {dotInternals} (to distinguish non-exported package functions by prepending their names with a dot)

Code analysis 🗂⏱

General

  • {codetools} (code analysis tools for R)

  • {goodpractice} (Swiss army knife for good practices)

  • {inteRgrate} (provides an opinionated set of rules for R package development)

  • {checklist} (to provide an elaborate and strict set of checks for R packages and R code)

  • {pkgcheck} (checks if package follows good practices recommended for packages in the rOpenSci ecosystem)

  • {pkgstats} (a static code analysis tool)

  • {rchk} (provides several bug-finding tools that look for memory protection errors in C source code using R API)

  • {sourcetools} (tools for reading, tokenizing, and parsing R code)

  • {precommit} (git hooks for common tasks like formatting files, spell checking, etc.)

Code review

  • {PaRe} (reviews other packages during code review by looking at their dependencies, code style, code complexity, and how internally defined functions interact with one another)

Code coverage

  • {covr} (to compute code coverage)

  • {covrpage} (to include summary README of code coverage and more detailed information about tests)

  • {covtracer} (provides tools for contextualizing tests)

Code quality

  • {lintr} (static code analysis)

  • {flint} (to fix lints found by {lintr})

  • {roxylint} (to lint {roxygen2}-generated documentation)

  • {checkglobals} (to check R-packages for globals and imports)

  • {CodeDepends} (analysis of R code for reproducible research and code view)

  • {adaptalint} (infer code style from one package and use it to check another)

  • {box.linters} (linters for {box} modules)

  • {roger} (provides tools for grading the coding style and documentation of R scripts)

  • {cleanr} (tests code for some of the most common code layout flaws)

Code complexity

  • {cyclocomp} (to index the complexity of a function)

  • {pkgGraphR} (to visualize the relationship between functions in an R package)

Code similarity

  • {dupree} (identifies code blocks that have a high level of similarity within a set of R files)

  • {rscc} (provides source code similarity evaluation by variable/function names)

  • {SimilaR} (quantifies the similarity of the code-base of R functions by means of program dependence graphs)

Compiled code

JavaScript code

  • {jshintr} (to run JSHint for static code analysis for JavaScript code included in the package)

Lines of code

  • {cloc} (counts blank lines, comment lines, and physical lines of source code in source files)

Refactoring

  • {refactor} (to check speed and performance of both the original and refactored version of code)

Code performance ⏱️

Benchmarking

  • {bench} (provides high precision benchmarks for R expressions)

  • {microbenchmark} (infrastructure to accurately measure and compare the execution time of R expressions)

  • {tictoc} (functions for timing R scripts)

  • {touchstone} (to benchmark pull requests)

  • {benchmarkme} (to crowd-source system benchmarking)

  • {comparer} (to compare the results of different code chunks)

Profiling

  • {profvis} (to profile and visualize profiling data)

  • {proffer} (to create friendlier, faster visualizations for profiling data)

  • {jointprof} (to profile packages with native code in C, C++, Fortran, etc.)

  • {xrprof} (an external sampling profiler)

Reproducible Environments 🌐

Package management

  • {renv} (to create project-local environments)

  • {rix} (to create reproducible data science environments using the Nix package manager)

  • {bspm} (to enable binary package installations via Linux distribution’s package manager)

  • {rspm} (to access Posit Public Package Manager for binary package installations on Linux)

  • {groundhogr} (to load packages and their dependencies as available on chosen date on CRAN)

Containerization 🛍

  • {containerit} (to package R script/session/workspace and all dependencies as a Docker container by generating a suitable Dockerfile)

  • {dockerfiler} (to generate Dockerfile for R projects)

  • {pracpac} (a {usethis}-like interface to create Docker images from R packages under development)

  • {usethat} (to automate analytic project setup tasks)

Dependency Management ⚖️

  • {pkgdepends} (to find recursive dependencies of from various sources)

  • {deepdep} (to visualize and explore package dependencies)

  • {itdepends} (to assess usage, measure weights, visualize proportions, and assist removal of dependencies)

  • {DependenciesGraphs} (to visualize package dependencies)

  • {DependencyReviewer} (to investigate packages during code review by looking at their dependencies)

  • {pkgdepR} (to visualize dependencies between functions for a group of R packages)

  • {deps} (to manage source code dependencies by decorating R code with roxygen-style comments)

  • {pkgnet} (to build a graph representation of a package and its dependencies)

  • {functiondepends} (to find functions in an unstructured directory and explore their dependencies)

  • {pkgndep} (checks the heaviness of the packages used)

  • {attachment} (to deal with package dependencies during package development)

CRAN/Bioconductor checks 📬

  • {rcmdcheck} (to run R CMD check form R programmatically)

  • {BiocCheck} (to run Bioconductor-specific package checks)

  • {rhub} (to run R CMD check on CRAN architectures)

  • {checked} (systematically run R CMD check against multiple packages)

  • {checkhelper} (to help avoid problems with CRAN submissions)

  • {extrachecks} (to run some additional CRAN checks)

  • {foghorn} (to check for results and submission portal status)

  • {urlchecker} (to checks for URL rot)

Usage 🙈

CI/CD 📟

CI/CD: continuous integration and either continuous delivery or continuous deployment

Security/Privacy 👮

  • {gpg} (GNU privacy guard for R)

  • {oysteR} (to secure package against insecure dependencies)

Build systems

  • {fakemake} (to mock Unix Make build system in case it is unavailable)

Debugging 🔭

  • {debugme} (provides helpers to specify debug messages as special string constants, and control debugging of packages via environment variables)

  • {debugr} (tools to print out the value of R objects/expressions while running an R script)

  • {winch} (provides stack traces for call chains that cross between R and C/C++ function calls)

  • {flow} (to visualize as flow diagrams the logic of functions, expressions, or scripts, which can ease debugging)

  • {boomer} (provides debugging tools to inspect the intermediate steps of a call)

Input validation 🔬

Function argument validation

  • {chk} (to check user-supplied function arguments)

  • {checkmate} (fast and versatile argument checks)

  • {assertthat} (to declare the pre and post conditions that you code should satisfy and to produce friendly error messages)

  • {assertive} (provides readable check functions to ensure code integrity)

  • {valaddin} (functional input validation)

  • {dreamerr} (to check the arguments passed to a function and to offer informative error messages)

  • {erify} (to check arguments and generate readable error messages)

Data validation

  • {assertr} (to verify assumptions about data early)

  • {ensurer} (to ensure values are as expected at runtime)

  • {validate} (to check whether data lives up to expectations based on the domain-specific knowledge)

Package metadata 🖨

  • {codemetar} (provides utilities to generate, parse, and modify codemeta.jsonld files automatically for R packages), or {codemeta} (a leaner version of {codemetar})

  • {cffr} (provides utilities to generate, parse, modify and validate CITATION.cff files automatically for R packages)

  • {citation} (creates CITATION.cff from R package metadata)

  • {pkgapi} (to create the map of function calls in a package)

  • {riskmetric} (provides a collection of risk metrics to evaluate the quality of R packages)

  • {packagemetrics} (for comparing among packages)

  • {devtoolbox} (to create a summary report for R package and to extract dependency statistics in a tidy data frame)

  • {pkgattrs} (useful for getting information on the contents of any R package)

  • {foreman} (for unpacking, interrogating and subsetting R packages)

  • {sessioninfo} (to include R session information)

Reverse dependency checks 📡⚰️

  • {revdepcheck} (for automated, isolated, reverse dependency checking)

  • {xfun} (specifically, xfun::rev_check())

Gratitude 🙏💌

To thank the contributors or maintainers of packages you rely on.

Integration with other languages 🔗

C++

Fortran

Python

Rust

.NET Framework

JavaScript/HTML/CSS

Julia

Upkeep 🧹

  • {TODOr} (RStudio addin to list things that you need to do or change)

Sundry 🗒

  • {lazyData} (supplies a lazy data loading for packages with datasets that do not provide LazyData: true)

  • {pkglite} (tools to represent and exchange R package source code as text files)

  • {gpttools} (RStudio addin that allows using chatGPT to automate writing documentation, tests, etc.)

  • {rfold} (to work with many R folders within an R package)

  • {many} (to create R packages from many directories)

  • {prefixer} (prefix function with their namespace )

  • {onetime} (for package authors to run code only once for a given user on a given computer)

  • {rstudioapi} (to conditionally access the RStudio API from CRAN packages)

  • {rcheology} (to access data on base packages for previous versions of R)

  • {gitignore} (to fetch gitignore templates)

  • {DIZutils} (helpers for packages dealing with database connections)

  • {dang} (Miscellaneous utilities for CRAN packages)

Session information

Session details 

─ Session info ───────────────────────────────────────────────────────────────
 setting  value
 version  R version 4.4.2 (2024-10-31)
 os       Ubuntu 22.04.5 LTS
 system   x86_64, linux-gnu
 hostname fv-az2031-111
 ui       X11
 language (EN)
 collate  C.UTF-8
 ctype    C.UTF-8
 tz       UTC
 date     2024-12-22
 pandoc   3.6 @ /opt/hostedtoolcache/pandoc/3.6/x64/ (via rmarkdown)
 quarto   1.7.5 @ /usr/local/bin/quarto

─ Packages ───────────────────────────────────────────────────────────────────
 package     * version    date (UTC) lib source
 base        * 4.4.2      2024-10-31 [3] local
 cli           3.6.3      2024-06-21 [1] RSPM
 clipr         0.8.0      2022-02-22 [1] RSPM
 compiler      4.4.2      2024-10-31 [3] local
 datasets    * 4.4.2      2024-10-31 [3] local
 desc          1.4.3      2023-12-10 [1] RSPM
 details     * 0.3.0      2022-03-27 [1] RSPM
 digest        0.6.37     2024-08-19 [1] RSPM
 evaluate      1.0.1      2024-10-10 [1] RSPM
 fastmap       1.2.0      2024-05-15 [1] RSPM
 graphics    * 4.4.2      2024-10-31 [3] local
 grDevices   * 4.4.2      2024-10-31 [3] local
 grid          4.4.2      2024-10-31 [3] local
 htmltools     0.5.8.1    2024-04-04 [1] RSPM
 httr          1.4.7      2023-08-15 [1] RSPM
 jsonlite      1.8.9      2024-09-20 [1] RSPM
 knitr         1.49       2024-11-08 [1] RSPM
 magrittr      2.0.3      2022-03-30 [1] RSPM
 methods     * 4.4.2      2024-10-31 [3] local
 png           0.1-8      2022-11-29 [1] RSPM
 R6            2.5.1      2021-08-19 [1] RSPM
 rlang         1.1.4      2024-06-04 [1] RSPM
 rmarkdown     2.29       2024-11-04 [1] RSPM
 sessioninfo   1.2.2.9000 2024-11-03 [1] Github (r-lib/sessioninfo@37c81af)
 stats       * 4.4.2      2024-10-31 [3] local
 tools         4.4.2      2024-10-31 [3] local
 utils       * 4.4.2      2024-10-31 [3] local
 withr         3.0.2      2024-10-28 [1] RSPM
 xfun          0.49       2024-10-31 [1] RSPM
 xml2          1.3.6      2023-12-04 [1] RSPM
 yaml          2.3.10     2024-07-26 [1] RSPM

 [1] /home/runner/work/_temp/Library
 [2] /opt/R/4.4.2/lib/R/site-library
 [3] /opt/R/4.4.2/lib/R/library
 * ── Packages attached to the search path.

──────────────────────────────────────────────────────────────────────────────

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A curated list of awesome tools for R package development

indrajeetpatil.github.io/awesome-r-pkgtools/

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