R Observatory: Metrics for puniform version 0.2.8

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

puniform

0.2.8

Meta-Analysis Methods Correcting for Publication Bias

1packages depend

6Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Robbie C.M. van AertFirst published 2018-07-0510 releasesCRAN page ↗GitHub ↗

Provides meta-analysis methods that correct for publication bias and outcome reporting bias. Four methods and a visual tool are currently included in the package. The p-uniform method as described in van Assen, van Aert, and Wicherts (2015) doi:10.1037/met0000025 can be used for estimating the average effect size, testing the null hypothesis of no effect, and testing for publication bias using only the statistically significant effect sizes of primary studies. The second method in the package is the p-uniform* method as described in van Aert and van Assen (2023) doi:10.31222/osf.io/zqjr9. This method is an extension of the p-uniform method that allows for estimation of the average effect size and the between-study variance in a meta-analysis, and uses both the statistically significant and nonsignificant effect sizes. The third method in the package is the hybrid method as described in van Aert and van Assen (2018) doi:10.3758/s13428-017-0967-6. The hybrid method is a meta-analysis method for combining a conventional study and replication/preregistered study while taking into account statistical significance of the conventional study. This method was extended in van Aert (2025) doi:10.1037/met0000719 such that it allows for the inclusion of multiple conventional and replication/preregistered studies. The p-uniform and hybrid method are based on the statistical theory that the distribution of p-values is uniform conditional on the population effect size. The fourth method in the package is the Snapshot Bayesian Hybrid Meta-Analysis Method as described in van Aert and van Assen (2018) doi:10.1371/journal.pone.0175302. This method computes posterior probabilities for four true effect sizes (no, small, medium, and large) based on an original study and replication while taking into account publication bias in the original study. The method can also be used for computing the required sample size of the replication akin to power analysis in null-hypothesis significance testing. The meta-plot is a visual tool for meta-analysis that provides information on the primary studies in the meta-analysis, the results of the meta-analysis, and characteristics of the research on the effect under study (van Assen et al., 2023). Helper functions to apply the Correcting for Outcome Reporting Bias (CORB) method to correct for outcome reporting bias in a meta-analysis (van Aert & Wicherts, 2023).

Install

R (CRAN)pak (dev)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("puniform", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("RobbievanAert/puniform")

Development version from RobbievanAert/puniform. Installs pak first if it is not already available.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-puniform

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-puniform

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-puniform

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

13OK

Slowest check: 3.6 min · r-devel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

5

Dependencies · direct

Check history

OK2026-08-05
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-04-22
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-04-18
13 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 188 wordsVignettesNopkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 94%
References docs: 76%

Downloads

6K

CRAN downloads in the past year

Rank #6,699 · ~16/day · ~501/mo

Releases R versions

Daily download trend is not available in this view yet.

38130 days

1.2K90 days

6K1 year

Compare downloads with other packages →

Also on450 r2u20 autocran2.9K conda_forge82 c2d4u

Repository

GitHub ↗ robbievanaert/puniform

3Stars

0Forks

0Open issues

0Open PRs

3Releases

222Commits

3Contributors

222 commits · Last activity 2025-12-17

Stars over time

2018-12-04 · 32026-07-07 · 3

Repository practices

Upstream repositoryBeta

4 development-tooling and community-health practices detected across 4 families in the upstream repository

Checks run against github.com/robbievanaert/puniform on 2026-08-23.

Continuous integration (1)

GitHub Actions

CRAN release process (1)

cran-comments.md

Docs source (1)

README.Rmd

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v1 (2026-07-18)

Dependencies

Declared dependencies

7 external dependencies (excludes base and recommended)

Depends (0)

none

Imports (5)

Rcpp ADGofTeststatsmetafor numDeriv

LinkingTo (2)

Rcpp RcppArmadillo

Suggests (1)

metadat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

PublicationBiasBenchmark

Code & Tests

Datasets

People & History

People (1)

Maintainer (1)

Robbie C.M. van Aert

Author, Maintainer

Authors (1)

Robbie C.M. van Aert

Author, Maintainer

Listed in earlier versions (1)

van Aert

no longer listed · 0.2.8

Package Timeline

10 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
0.2.8Latest
2025-09-02 · current release · diff ↗
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
0.2.7
2023-09-19 · diff ↗
0.2.6
2023-07-17 · diff ↗
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
0.2.5
2022-03-21 · diff ↗
R
R 4.1.0 released · 2021-05-18
0.2.4
2021-01-06 · diff ↗
0.2.3
2020-10-26 · diff ↗
0.2.2
2020-06-20 · diff ↗
R
R 4.0.0 released · 2020-04-24
0.2.1
2019-08-27 · diff ↗
R
R 3.6.0 released · 2019-04-26

Show 3 earlier events

0.1.1
2019-03-06 · diff ↗
0.1.0
2018-07-05
R
R 3.5.0 released · 2018-04-23

Package metadata

First published: 2018-07-05
Total releases: 10 / 8 yrs
License: GPL (>= 2) OSI
Bundled data: 0.2 KB / 1 file
Download size: 76 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Meta-Analysis

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("puniform")

Format

van Aert, R. C. M. (2025). puniform: Meta-Analysis Methods Correcting for Publication Bias (Version 0.2.8) [Computer software]. https://doi.org/10.32614/CRAN.package.puniform

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for puniform version 0.2.8 [Data set]. HJJB, LLC. Data release v2026-08-24. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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