bonsaiforest

0.1.1

Shrinkage Based Forest Plots

0packages depend

2.8Kdownloads / year

96.4%test coverage

13/13checks pass

Overview

About

Maintained by Isaac GravestockFirst published 2024-06-172 releasesCRAN page ↗GitHub ↗

Subgroup analyses are routinely performed in clinical trial analyses. From a methodological perspective, two key issues of subgroup analyses are multiplicity (even if only predefined subgroups are investigated) and the low sample sizes of subgroups which lead to highly variable estimates, see e.g. Yusuf et al (1991) doi:10.1001/jama.1991.03470010097038. This package implements subgroup estimates based on Bayesian shrinkage priors, see Carvalho et al (2019) https://proceedings.mlr.press/v5/carvalho09a.html. In addition, estimates based on penalized likelihood inference are available, based on Simon et al (2011) doi:10.18637/jss.v039.i05. The corresponding shrinkage based forest plots address the aforementioned issues and can complement standard forest plots in practical clinical trial analyses.

Install

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

install.packages("bonsaiforest", 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("insightsengineering/bonsaiforest")

Development version from insightsengineering/bonsaiforest. 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-bonsaiforest

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

# 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-bonsaiforest

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

Health

CRAN checks

13OK

Slowest check: 17.5 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 2.28

96.4%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-04-25
11 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-04-22
11 OK · 3 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-04-18
10 OK · 3 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE

Show 1 earlier snapshots

NOTE2026-03-10
11 OK · 3 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 96%
Documented parameters: 100%
Return-value docs: 100%
References docs: 0%

Downloads

2.8K

CRAN downloads in the past year

Rank #13,969 · ~8/day · ~230/mo

Releases R versions

Daily download trend is not available in this view yet.

27830 days

76390 days

2.8K1 year

Compare downloads with other packages →

Also on591 r2u47 autocran

Repository

GitHub ↗ insightsengineering/bonsaiforest

3Stars

1Forks

2Open issues

2Open PRs

2Releases

85Commits

6Contributors

statistical-engineering

85 commits · Last activity 2024-11-29

Stars over time

2024-07-21 · 32026-07-07 · 3

Repository practices

Upstream repositoryBeta

8 development-tooling and community-health practices detected across 6 families in the upstream repository

Checks run against github.com/insightsengineering/bonsaiforest on 2026-07-19.

Continuous integration (1)

GitHub Actions

Reproducibility and dev environment (1)

data-raw/

Docs source (1)

README.Rmd

Automation and maintenance (1)

pre-commit

Show all practices

Lint, format, editor (2)

lintrRStudio project

Governance and community (2)

Issue templatesCODEOWNERS

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

Dependencies

Declared dependencies

19 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.1

Imports (17)

brms broom checkmate dplyr forcats gbm ggplot2 glmnetMASSRcpp splines2statssurvivaltibble tidyr tidyselect vdiffr

LinkingTo (2)

Rcpp RcppArmadillo

Suggests (3)

knitr rmarkdown testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (5)

Maintainer (1)

Isaac Gravestock

Maintainer

Authors (3)

Daniel Sabanés Bové

Author

Mar Vazquez Rabunal

Author

Marcel Wolbers

Author

F. Hoffmann-La Roche AG

Funders (1)

F. Hoffmann-La Roche AG

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
0.1.1Latest
2024-09-27 · current release · diff ↗
0.1.0
2024-06-17
R
R 4.4.0 released · 2024-04-24

Package metadata

First published: 2024-06-17
Total releases: 2 / 2 yrs
License: Apache License 2.0 OSI
Minimum R: ≥ 4.1
Bundled data: 3.4 MB / 13 files
Download size: 3.7 MB
Installed size: not tracked yet
With dependencies: not tracked yet

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