Authors: yourGivenName yourFamilyName
README updated: Aug-03-2025
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Citation
If you use the templateR R package template, or any of the rworkflows suite tools, please cite:
Brian M. Schilder, Alan E. Murphy, & Nathan G. Skene (2023) The rworkflows suite: automated continuous integration for quality checking, documentation website creation, and containerised deployment of R packages, Research Square; https://doi.org/10.21203/rs.3.rs-2399015/v1
Setup
templateR is a template designed to make developing new R packages easy by providing:
-
DESCRIPTION, vignettes/, tests/, R/, man/, inst/: Basic skeleton for the package itself.
-
README.Rmd: Auto-populates based on the DESCRIPTION file (that can be knit to create README.md). Also contains badges that automatically update themselves.
- inst/hex/hexSticker.Rmd: Template for creating hex stickers.
-
.github/workflows/*.yml: GitHub Actions workflow files that will automatically trigger code checks and pushing images to DockerHub every time you make a push to your GitHub repo (from
rworkflows). -
inst/CITATION : Allows users of your package to call
citation("<packageName>"). Also used to auto-populate the README.Rmd.
To get started, simply click on the green Use this template button at the top right of the templateR repo.
GitHub Secrets
To use certain features of rworkflows, you may need to set up one or more GitHub Secrets:
-
PAT_GITHUB[Optional]: Can grant access to private repos on GitHub Actions. You can generate your very own Personal Authentication Token withusethis::create_github_token(). See the GitHub docs for details.
-
DOCKER_TOKEN[Optional]: Allows GitHub Actions to push to a DockerHub account.
GitHub Pages
The GitHub Actions workflows included in this template will automatically create a documentation website for your package via GitHub Pages.
After the rworkflows action has successfully run on Ubuntu for the first time, a new branch will appear in your repo called “gh-pages”.
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templateR: packageTitle
packageDescription.
If you use templateR, please cite:
author1, author2, author3 (publicationYear) articleTitle, journalName; volumeNumber, linkToPublication
Installation
if(!require("BiocManager")) install.packages("BiocManager")
BiocManager::install("neurogenomics/templateR")
library(templateR)Session Info
utils::sessionInfo()## R version 4.5.1 (2025-06-13)
## Platform: x86_64-pc-linux-gnu
## Running under: Ubuntu 24.04.2 LTS
##
## Matrix products: default
## BLAS: /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so.3
## LAPACK: /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblasp-r0.3.26.so; LAPACK version 3.12.0
##
## locale:
## [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
## [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
## [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
## [7] LC_PAPER=en_US.UTF-8 LC_NAME=C
## [9] LC_ADDRESS=C LC_TELEPHONE=C
## [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
##
## time zone: UTC
## tzcode source: system (glibc)
##
## attached base packages:
## [1] stats graphics grDevices utils datasets methods base
##
## other attached packages:
## [1] rmarkdown_2.29
##
## loaded via a namespace (and not attached):
## [1] vctrs_0.6.5 cli_3.6.5 knitr_1.50
## [4] rlang_1.1.6 xfun_0.52 renv_1.1.5
## [7] data.table_1.17.8 jsonlite_2.0.0 glue_1.8.0
## [10] rprojroot_2.1.0 htmltools_0.5.8.1 scales_1.4.0
## [13] dlstats_0.1.7 grid_4.5.1 evaluate_1.0.4
## [16] tibble_3.3.0 fastmap_1.2.0 yaml_2.3.10
## [19] lifecycle_1.0.4 BiocManager_1.30.26 rvcheck_0.2.1
## [22] compiler_4.5.1 fs_1.6.6 RColorBrewer_1.1-3
## [25] pkgconfig_2.0.3 here_1.0.1 rworkflows_1.0.6
## [28] farver_2.1.2 digest_0.6.37 R6_2.6.1
## [31] pillar_1.11.0 magrittr_2.0.3 tools_4.5.1
## [34] gtable_0.3.6 badger_0.2.5 desc_1.4.3
## [37] yulab.utils_0.2.0 ggplot2_3.5.2