R Observatory: Metrics for ebnm version 1.1-42

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

ebnm

1.1-42Package record

Solve the Empirical Bayes Normal Means Problem

2packages dependsuggested by 1

7.8Kdownloads / year

70.7%test coverage

13/13flavors OK

Overview

About

Maintained by Peter CarbonettoCRAN page ↗GitHub ↗Issues ↗

Provides simple, fast, and stable functions to fit the normal means model using empirical Bayes. For available models and details, see function ebnm(). Our JSS article, Willwerscheid, Carbonetto, and Stephens (2025) doi:10.18637/jss.v114.i03, provides a detailed introduction to the package.

Install

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

install.packages("ebnm", 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("stephenslab/ebnm")

Development version from stephenslab/ebnm. 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-ebnm

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-ebnm

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-ebnm

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

13OK

CRAN check page ↗

Slowest check: 4.8 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.1-42

READMEYes · 467 wordsVignettesYes · 3 · dynamicNEWSNoCitation fileYes · cites a publication

Cites a JSS article

Help pages: 41
Examples that run: 100%5 run in a plain check
Exported functions with examples: 12%
Documented parameters: 99%
Return-value docs: 88%
Help pages citing references: 12%

Vignettes (3)

How these are measured

Downloads

7.8K

CRAN downloads in the past year

Rank #5,935 · ~21/day · ~647/mo

Releases R versions

Daily download trend is not available in this view yet.

54630 days

1.4K90 days

7.8K1 year

Compare downloads with other packages →

Also on110 r2u7 autocran

How downloads are counted

Repository

stephenslab/ebnm ↗Organization: stephenslab

14Stars

12Forks

17Open issues

0Open PRs

3Releases

792Commits

5Commit identities

792 commits · Last activity 2025-10-08 · 0% stars, 30d

Responsiveness

How these are sampled

PRs merged (all time): 97%
Median days to close, 50 most recently updated closed issues: 16
Median days to close, 50 most recently updated closed PRs: 0

Stars over time

2024-07-09 · 122026-08-05 · 14

How these are measured

PracticesBeta

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

Checks run against github.com/stephenslab/ebnm on 2026-10-18.

Continuous integration (3)

Travis CI (config file)AppVeyorCircleCI

Docs source (2)

pkgdown

GitHub Pages site last deployed 2025-10-09

Reproducibility and dev environment (1)

data-raw/

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v3 (2026-09-26)

Dependencies

Declared dependencies

17 external dependencies (excludes base and recommended)

Installing ebnm adds 36 packages (18 with compiled code, 25 MB of source tarballs). Heaviest: ggplot2 6.0 MB, invgamma 2.5 MB, Rcpp 1.8 MB.

Depends (1)

R >= 3.3.0

Imports (10)

statsashr mixsqp truncnorm trust deconvolveR magrittr rlang dplyr ggplot2

LinkingTo (0)

none

Suggests (8)

testthat REBayes horseshoe knitr rmarkdown cowplot mcmc numDeriv

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

2direct

0indirect

Depends 1 · Imports 1

Suggested by 1

Depends, Imports or LinkingTo, most downloaded first

flashier mr.mashr

Suggests, most downloaded first

mashr

How these are counted

Code & Tests

Datasets

People & History

People (5)

Peter Carbonetto

Author, Maintainer · added in 1.1-2

Matthew Stephens

Author · added in 1.1-2

Jason Willwerscheid

Author · added in 1.1-2

Andrew Goldstein

Contributor · added in 1.1-2

Yusha Liu

Contributor · added in 1.1-2

Maintainer since 1.0-9 (2022)

Releases (4)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
1.1-42Latest
record
2025-10-10 · current release · diff ↗
1.1-38
record
2025-09-05 · diff ↗ ·
added 1 export
ebnm_check_fn
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
1.1-2
record
2023-10-12 · diff ↗ ·
removed 2 exports
output_all, output_default

added 10 exports
ebnm_add_sampler, ebnm_flat, ebnm_generalized_binary, ebnm_group, ebnm_output_all, ebnm_output_default, ebnm_point_mass, ebnm_scale_normalmix, ebnm_scale_npmle, ebnm_scale_unimix
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
1.0-9
record
2022-03-08
R
R 4.1.0 released · 2021-05-18

Package metadata

First published: 2022-03-08
Total releases: 4 / 4 yrs
License: GPL (>= 3) OSI
Minimum R: ≥ 3.3.0
Bundled data: 11 KB / 1 file
Download size: 585 KB

Cite

Cite this package

Run in R for the authors' entry:

citation("ebnm")

The package provides a citation file, so citation() returns the authors' own entry.

It points to 10.18637/jss.v114.i03.

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 ebnm version 1.1-42 [Data set]. HJJB, LLC. Data release v2026-10-21. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-21, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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