BCHM

1.00

Clinical Trial Calculation Based on BCHM Design

0packages depend

3.5Kdownloads / year

74.3%test coverage

9/13checks pass

Overview

About

Maintained by J. Jack LeeFirst published 2019-12-203 releasesCRAN page ↗

Users can estimate the treatment effect for multiple subgroups basket trials based on the Bayesian Cluster Hierarchical Model (BCHM). In this model, a Bayesian non-parametric method is applied to dynamically calculate the number of clusters by conducting the multiple cluster classification based on subgroup outcomes. Hierarchical model is used to compute the posterior probability of treatment effect with the borrowing strength determined by the Bayesian non-parametric clustering and the similarities between subgroups. To use this package, 'JAGS' software and 'rjags' package are required, and users need to pre-install them.

Install

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

install.packages("BCHM", 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-bchm

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-BCHM

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-BCHM

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

Health

CRAN checks

4NOTE9OK

Failing flavors

NOTE r-devel-linux-x86_64-debian-clang
NOTE r-devel-linux-x86_64-debian-gcc
NOTE r-devel-linux-x86_64-fedora-clang
NOTE r-devel-linux-x86_64-fedora-gcc

Slowest check: 1.3 min · r-release-macos-x86_64

Code health

Yes

Tests · ratio 0.05

74.3%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

NOTE2026-03-10
7 OK · 7 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 85%
Return-value docs: 100%
References docs: 0%

Downloads

3.5K

CRAN downloads in the past year

Rank #12,294 · ~10/day · ~293/mo

Releases R versions

Daily download trend is not available in this view yet.

28630 days

86890 days

3.5K1 year

Compare downloads with other packages →

Also on115 r2u41 autocran51 c2d4u

Dependencies

Declared dependencies

6 external dependencies (excludes base and recommended)

Depends (2)

R >= 3.5rjags

Imports (6)

statsclustercoda knitr crayon plyr

LinkingTo (0)

none

Suggests (1)

testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Code Composition

R 1,010 (70%)Rd 356 (25%)Vignettes 68 (5%)

Code characteristics

Object systems

S36

Cyclomatic complexity: 1.0 median / 10 max
System requirements: 1 external

Test coverage

Line coverage

74%

Expression

71.9%

Tests / Examples

74.3% / 74% ex

Functions

28 4 exported

Complexity

2.5 avg / 10 max

Call network

28 nodes / 13 edges

Call graph

Open call graph →

Loading call graph…

Lowest coverage

28 functions

Function	Cyclo	Coverage
BCHMplot_cluster.default	1	0%
BCHMplot_post_dist.default	1	0%
BCHMplot_post_value.default	1	0%
getVar	1	0%
initData	2	0%
initDataWithWeight	2	0%

People & History

People (0)

Author records are not tracked yet for this package.

Listed in earlier versions (2)

Nan Chen

no longer listed · 0.96 to 1.00

J. Jack Lee

no longer listed · 0.96 to 1.00

Package Timeline

3 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
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
R
R 4.1.0 released · 2021-05-18
1.00Latest
2020-06-06 · current release · diff ↗
R
R 4.0.0 released · 2020-04-24
0.99
2020-02-19 · diff ↗
0.96
2019-12-20
R
R 3.6.0 released · 2019-04-26

Package metadata

First published: 2019-12-20
Total releases: 3 / 7 yrs
License: LGPL-2 OSI
Minimum R: ≥ 3.5
Download size: 307 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

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