R Observatory: Metrics for publipha version 0.1.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

publipha

0.1.2Package record

Bayesian Meta-Analysis with Publications Bias and P-Hacking

1packages depend

2.9Kdownloads / year

83.2%test coverage

0/13flavors OK

Overview

About

Maintained by Jonas MossCRAN page ↗

Tools for Bayesian estimation of meta-analysis models that account for publications bias or p-hacking. For publication bias, this package implements a variant of the p-value based selection model of Hedges (1992) doi:10.1214/ss/1177011364 with discrete selection probabilities. It also implements the mixture of truncated normals model for p-hacking described in Moss and De Bin (2019) arXiv:1911.12445.

Install

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

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

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

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-publipha

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

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-publipha

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-publipha

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

13NOTE

Check messages

NOTERd filesr-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64

checkRd: (-1) ma.Rd:62: Lost braces
    62 | \item{yi}{Numeric vector of length code{k} with observed effect size
       |                                        ^
checkRd: (-1) ma.Rd:65: Lost braces
    65 | \item{vi}{Numeric vector of length code{k} with sampling variances.}
       |                                        ^

NOTECRAN incoming feasibilityr-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Maintainer: ‘Jonas Moss <jonas.gjertsen@gmail.com>’

The Description field contains
  <arXiv:1911.12445>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.

CRAN check page ↗

Slowest check: 13.8 min · r-oldrel-windows-x86_64

Status changes

NOTE13 NOTE2026-07-29
ERROR12 NOTE, 1 ERROR2026-07-27
NOTE14 NOTE2026-04-22
ERROR13 NOTE, 1 ERROR2026-04-18
NOTE14 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.1.2

READMEYes · 263 wordsVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 19 (5 internal)includes a package overview page
Examples that run: 71%5 run in a plain check · 2 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 100%
Documented parameters: 81%
Return-value docs: 100%
Help pages citing references: 58%

How these are measured

Downloads

2.9K

CRAN downloads in the past year

Rank #14,489 · ~8/day · ~244/mo

Releases R versions

Daily download trend is not available in this view yet.

27930 days

82890 days

2.9K1 year

Compare downloads with other packages →

Also on368 r2u4 autocran100 c2d4u

How downloads are counted

Dependencies

Declared dependencies

18 external dependencies (excludes base and recommended)

Installing publipha adds 49 packages (23 with compiled code, 43 MB of source tarballs). Heaviest: BH 14 MB, ggplot2 6.0 MB, loo 2.7 MB.

Depends (3)

R >= 3.6.0methodsRcpp

Imports (4)

rstan rstantools loo truncnorm

LinkingTo (6)

BH Rcpp RcppEigen (>= 0.3.3.4.0)rstan StanHeaders RcppParallel

Suggests (7)

testthat covr knitr rmarkdown metafor spelling metadat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

Imports 1

Depends, Imports or LinkingTo, most downloaded first

PublicationBiasBenchmark

How these are counted

Code & Tests

Datasets

People & History

People (2)

Jonas Moss

Author, Maintainer since 0.1.0 (2020)

Trustees of Columbia University

Copyright holder

Releases (3)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
0.1.2Latest
record
2023-04-04 · current release · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
0.1.1
record
2020-01-15 · diff ↗
0.1.0
record
2020-01-08
R
R 3.6.0 released · 2019-04-26

Package metadata

First published: 2020-01-08
Total releases: 3 / 6 yrs
License: GPL-3 OSI
Minimum R: ≥ 3.6.0
Bundled data: 42 KB / 5 files
Download size: 111 KB

Appears in task views

Meta-Analysis

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("publipha")

Format

Moss, J., & Trustees of Columbia University. (2023). publipha: Bayesian Meta-Analysis with Publications Bias and P-Hacking (Version 0.1.2) [Computer software]. https://doi.org/10.32614/CRAN.package.publipha

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

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 publipha version 0.1.2 [Data set]. HJJB, LLC. Data release v2026-10-24. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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