pepr: Reading Portable Encapsulated Projects

A PEP, or Portable Encapsulated Project, is a dataset that subscribes to the PEP structure for organizing metadata. It is written using a simple YAML + CSV format, it is your one-stop solution to metadata management across data analysis environments. This package reads this standardized project configuration structure into R. Described in Sheffield et al. (2021) <doi:10.1093/gigascience/giab077>.

Version:	0.6.0
Depends:	R (≥ 4.1.0)
Imports:	yaml, stringr, data.table, methods, RCurl, httr2
Suggests:	knitr, testthat (≥ 3.1.2), rmarkdown, curl
Published:	2026-02-28
DOI:	10.32614/CRAN.package.pepr
Author:	Nathan Sheffield [aut, cph, cre], Michal Stolarczyk [aut]
Maintainer:	Nathan Sheffield <nathan at code.databio.org>
BugReports:	https://github.com/pepkit/pepr/issues
License:	BSD_2_clause + file LICENSE
NeedsCompilation:	no
Citation:	pepr citation info
Materials:	README, NEWS
CRAN checks:	pepr results

Documentation:

Reference manual:	pepr.html , pepr.pdf
Vignettes:	Sample modifiers in pepr: append (source, R code) Sample modifiers in pepr: imply (source, R code) Sample modifiers in pepr: derive (source, R code) Sample modifiers in pepr: imply and derive (source, R code) Subsample table in pepr (source, R code) Amendments in pepr (source, R code) Getting Started with pepr (source, R code)

Downloads:

Package source:	pepr_0.6.0.tar.gz
Windows binaries:	r-devel: not available, r-release: not available, r-oldrel: not available
macOS binaries:	r-release (arm64): pepr_0.6.0.tgz, r-oldrel (arm64): pepr_0.6.0.tgz, r-release (x86_64): not available, r-oldrel (x86_64): not available
Old sources:	pepr archive

Linking:

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