bhmbasket

1.1.0

Bayesian Hierarchical Models for Basket Trials

1packages depend

5.1Kdownloads / year

93.7%test coverage

13/13checks pass

Overview

About

Maintained by Stephan WojciekowskiFirst published 2021-02-157 releasesCRAN page ↗GitHub ↗

Provides functions for the evaluation of basket trial designs with binary endpoints. Operating characteristics of a basket trial design are assessed by simulating trial data according to scenarios, analyzing the data with Bayesian hierarchical models (BHMs), and assessing decision probabilities on stratum and trial-level based on Go / No-go decision making. The package is build for high flexibility regarding decision rules, number of interim analyses, number of strata, and recruitment. The BHMs proposed by Berry et al. (2013) doi:10.1177/1740774513497539 and Neuenschwander et al. (2016) doi:10.1002/pst.1730, as well as a model that combines both approaches are implemented. Functions are provided to implement Bayesian decision rules as for example proposed by Fisch et al. (2015) doi:10.1177/2168479014533970. In addition, posterior point estimates (mean/median) and credible intervals for response rates and some model parameters can be calculated. For simulated trial data, bias and mean squared errors of posterior point estimates for response rates can be provided.

Install

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

install.packages("bhmbasket", 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("Boehringer-Ingelheim/bhmbasket")

Development version from Boehringer-Ingelheim/bhmbasket. 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-bhmbasket

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-bhmbasket

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-bhmbasket

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

Health

CRAN checks

13OK

Slowest check: 2.4 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 1.18

93.7%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 42 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 99%
Return-value docs: 100%
References docs: 28%

Downloads

5.1K

CRAN downloads in the past year

Rank #5,586 · ~14/day · ~425/mo

Releases R versions

Daily download trend is not available in this view yet.

36530 days

1.6K90 days

5.1K1 year

Compare downloads with other packages →

Also on156 r2u20 autocran

Repository

GitHub ↗ boehringer-ingelheim/bhmbasket

1Stars

0Forks

0Open issues

0Open PRs

2Releases

166Commits

2Contributors

166 commits · Last activity 2026-07-12 · 0% stars, 30d

Stars over time

2026-01-21 · 12026-07-07 · 1

Repository practices

Upstream repositoryBeta

3 development-tooling and community-health practices detected across 2 families in the upstream repository

Checks run against github.com/boehringer-ingelheim/bhmbasket on 2026-07-30.

Continuous integration (1)

GitHub Actions

CRAN release process (2)

cran-comments.mdCRAN-SUBMISSION

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

Dependencies

Declared dependencies

10 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.6.0

Imports (4)

foreach doRNG rjags checkmate

LinkingTo (0)

none

Suggests (6)

doFuture future knitr rmarkdown RBesT testthat (>= 3.0.0)

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

2indirect

basksim

Code & Tests

People & History

People (2)

Maintainer (1)

Stephan Wojciekowski

Author, Maintainer

Authors (2)

Stephan Wojciekowski

Author, Maintainer

Tathagata Chattopadhyay

Author · added in 1.0.0

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
1.1.0Latest
2026-04-15 · current release · diff ↗
1.0.0
2026-02-21 · diff ↗
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
R
R 4.2.0 released · 2022-04-22
0.9.5
2022-02-14 · diff ↗
0.9.4
2022-01-18 · diff ↗
0.9.3
2021-10-11 · diff ↗
R
R 4.1.0 released · 2021-05-18
0.9.2
2021-04-07 · diff ↗
0.9.1
2021-02-15
R
R 4.0.0 released · 2020-04-24

Package metadata

First published: 2021-02-15
Total releases: 7 / 5 yrs
License: GPL-3 OSI
Minimum R: ≥ 3.6.0
Download size: 651 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Clinical Trial Design, Monitoring, Analysis and Reporting

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