R Observatory: Metrics for BCHM version 1.00

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

BCHM

1.00

Clinical Trial Calculation Based on BCHM Design

0packages depend

3.5Kdownloads / year

74.3%test coverage

9/13flavors OK

Overview

About

Maintained by J. Jack LeeCRAN 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. 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-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). 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

4NOTE9OK

Check messages

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

Maintainer: ‘J. Jack Lee <jjlee@mdanderson.org>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Nan",
                      family = "Chen",
                      role = "aut"),
               person(given = c("J.", "Jack"),
                      family = "Lee",
                      role = c("aut", "cre"),
                      email = "jjlee@mdanderson.org"))
as necessary.

NOTEdependencies in R coder-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Namespaces in Imports field not imported from:
  ‘coda’ ‘knitr’ ‘plyr’
All declared Imports should be used.

CRAN check page ↗

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

Status changes

NOTE9 OK, 4 NOTENow
NOTE7 OK, 7 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.00

READMENoVignettesYes · 1 · dynamicNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 4
Examples that run: 100%4 run in a plain check
Exported functions with examples: 100%
Documented parameters: 85%
Return-value docs: 100%
Help pages citing references: 0%

Vignettes (1)

Using the basket Package

How these are measured

Downloads

3.5K

CRAN downloads in the past year

Rank #11,299 · ~10/day · ~295/mo

Releases R versions

Daily download trend is not available in this view yet.

34730 days

92190 days

3.5K1 year

Compare downloads with other packages →

Also on114 r2u32 autocran91 c2d4u

How downloads are counted

Dependencies

Declared dependencies

6 external dependencies (excludes base and recommended)

Installing BCHM adds 10 packages (5 with compiled code, 3.2 MB of source tarballs). Heaviest: Rcpp 1.8 MB, knitr 479 KB, plyr 392 KB.

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.

How these are counted

Code & Tests

People & History

People (from the free-text Author field) (2)

Nan Chen

J. Jack Lee

Maintainer since 1.00 (2020), previously Nan Chen (0.96 to 0.99)

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
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
1.00Latest
record
2020-06-06 · current release · diff ↗
R
R 4.0.0 released · 2020-04-24
0.99
record
2020-02-19 · diff ↗
0.96
record
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

Appears in task views

Causal Inference

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("BCHM")

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 BCHM version 1.00 [Data set]. HJJB, LLC. Data release v2026-10-17. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-17, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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