R Observatory: Metrics for bayesCureRateModel version 1.6

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

bayesCureRateModel

1.6Package record

Bayesian Cure Rate Modeling for Time-to-Event Data

0packages depend

5.4Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Panagiotis PapastamoulisCRAN page ↗GitHub ↗

A fully Bayesian approach in order to estimate a general family of cure rate models under the presence of covariates, see Papastamoulis and Milienos (2024) doi:10.1007/s11749-024-00942-w and Papastamoulis and Milienos (2024b) doi:10.48550/arXiv.2409.10221. The promotion time can be modelled (a) parametrically using typical distributional assumptions for time to event data (including the Weibull, Exponential, Gompertz, log-Logistic distributions), or (b) semiparametrically using finite mixtures of distributions. In both cases, user-defined families of distributions are allowed under some specific requirements. Posterior inference is carried out by constructing a Metropolis-coupled Markov chain Monte Carlo (MCMC) sampler, which combines Gibbs sampling for the latent cure indicators and Metropolis-Hastings steps with Langevin diffusion dynamics for parameter updates. The main MCMC algorithm is embedded within a parallel tempering scheme by considering heated versions of the target posterior distribution.

Install

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

install.packages("bayesCureRateModel", 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("mqbssppe/Bayesian_cure_rate_model")

Development version from mqbssppe/Bayesian_cure_rate_model. 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-bayescureratemodel

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-bayesCureRateModel

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-bayesCureRateModel

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: 4.2 min · r-devel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09
ERROR12 OK, 1 ERROR2026-06-08
OK14 OK2026-04-22

Show 2 earlier changesHide 2 earlier changes

ERROR13 OK, 1 ERROR2026-04-18
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.6

READMENoVignettesNoNEWSNoCitation fileYes · cites a publicationWebsitenot declared in DESCRIPTION

Help pages: 26includes a package overview page
Examples that run: 100%21 run in a plain check
Exported functions with examples: not tracked
Documented parameters: not tracked
Return-value docs: not tracked
Help pages citing references: 58%

How these are measured

Downloads

5.4K

CRAN downloads in the past year

Rank #7,733 · ~15/day · ~451/mo

Releases R versions

Daily download trend is not available in this view yet.

42430 days

1.2K90 days

5.4K1 year

Compare downloads with other packages →

Also on419 r2u38 autocran

How downloads are counted

Repository

mqbssppe/bayesian_cure_rate_model ↗Account: mqbssppe

1Stars

0Forks

0Open issues

0Open PRs

0Releases

47Commits

1Commit identities

47 commits · Last activity 2026-01-19

Responsiveness

not measured

Stars over time

2024-08-19 · 12026-07-07 · 1

How these are measured

PracticesBeta

2 development-tooling and community-health practices detected across 1 family in the upstream repository

Checks run against github.com/mqbssppe/bayesian_cure_rate_model on 2026-10-18.

Continuous integration (2)

GitHub ActionsR CMD check workflow

The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel

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

Dependencies

Declared dependencies

11 external dependencies (excludes base and recommended)

Installing bayesCureRateModel adds 54 packages (32 with compiled code, 50 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, data.table 5.7 MB.

Depends (1)

R >= 3.5.0

Imports (11)

RcppsurvivaldoParallelparallelforeach mclust coda HDInterval VGAM calculus flexsurv

LinkingTo (2)

Rcpp RcppArmadillo

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (2)

Panagiotis Papastamoulis

Author, Maintainer since 1.0 (2024)

Fotios Milienos

Author

Releases (7)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
1.6Latest
record
2026-01-19 · current release · diff ↗
1.5
record
2025-10-31 · diff ↗
1.4
record
2025-06-18 · diff ↗ ·
added 1 export
Surv
R
R 4.5.0 released · 2025-04-11
1.3
record
2024-10-04 · diff ↗
1.2
record
2024-09-14 · diff ↗
1.1
record
2024-07-24 · diff ↗
1.0
record
2024-06-27
R
R 4.4.0 released · 2024-04-24

Package metadata

First published: 2024-06-27
Total releases: 7 / 2 yrs
License: GPL-2 OSI
Minimum R: ≥ 3.5.0
Bundled data: 21 KB / 2 files
Download size: 76 KB

Cite

Cite this package

Run in R for the authors' entry:

citation("bayesCureRateModel")

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

It points to 10.1007/s11749-024-00942-w.

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 bayesCureRateModel version 1.6 [Data set]. HJJB, LLC. Data release v2026-10-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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