R Observatory: Metrics for disbayes version 1.1.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

disbayes

1.1.1

Bayesian Multi-State Modelling of Chronic Disease Burden Data

0packages depend

3.8Kdownloads / year

79.2%test coverage

13/13checks pass

Overview

About

Maintained by Christopher JacksonFirst published 2022-08-223 releasesCRAN page ↗GitHub ↗

Estimation of incidence and case fatality for a chronic disease, given partial information, using a multi-state model. Given data on age-specific mortality and either incidence or prevalence, Bayesian inference is used to estimate the posterior distributions of incidence, case fatality, and functions of these such as prevalence. The methods are described in Jackson et al. (2023) doi:10.1093/jrsssa/qnac015.

Install

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

install.packages("disbayes", 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("chjackson/disbayes")

Development version from chjackson/disbayes. 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-disbayes

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-disbayes

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

Health

CRAN checks

13OK

Slowest check: 13.7 min · r-devel-windows-x86_64

Code health

Yes

Tests · ratio 0.39

79.2%

Coverage · measured lines

100%

Documentation · exports

13

Dependencies · direct

Check history

OK2026-08-05
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-07-29
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-07-27
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Show 5 earlier snapshots

ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-04-25
12 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
NOTE2026-03-10
11 OK · 3 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 400 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 99%
Return-value docs: 89%
References docs: 38%

Downloads

3.8K

CRAN downloads in the past year

Rank #6,029 · ~10/day · ~318/mo

Releases R versions

Daily download trend is not available in this view yet.

27630 days

1.3K90 days

3.8K1 year

Compare downloads with other packages →

Also on413 r2u

Repository

GitHub ↗ chjackson/disbayes

10Stars

4Forks

0Open issues

0Open PRs

4Releases

125Commits

3Contributors

125 commits · Last activity 2026-04-28 · 0% stars, 30d

Stars over time

2025-08-07 · 92026-07-07 · 10

Repository practices

Upstream repositoryBeta

4 development-tooling and community-health practices detected across 4 families in the upstream repository

Checks run against github.com/chjackson/disbayes on 2026-08-23.

Continuous integration (1)

GitHub Actions

Reproducibility and dev environment (1)

data-raw/

Lint, format, editor (1)

RStudio project

Git structural (1)

.gitattributes

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

Dependencies

Declared dependencies

22 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.5.0

Imports (13)

dplyr tidyr magrittr tibble genericsmethodsRcpp (>= 0.12.0)rstanmgcvSHELF ggplot2 loo matrixStats

LinkingTo (6)

BH Rcpp RcppParallel RcppEigen rstan StanHeaders

Suggests (6)

knitr rmarkdown rstantools tempdisagg testthatcodetools

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (1)

Maintainer (1)

Christopher Jackson

Author, Maintainer, Copyright holder

Authors (1)

Christopher Jackson

Author, Maintainer, Copyright holder

Copyright holders (1)

Christopher Jackson

Author, Maintainer, Copyright holder

Package Timeline

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

1.1.1Latest
2026-04-27 · current release · diff ↗
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
1.1.0
2023-09-09 · diff ↗
R
R 4.3.0 released · 2023-04-21
1.0.0
2022-08-22
R
R 4.2.0 released · 2022-04-22

Package metadata

First published: 2022-08-22
Total releases: 3 / 4 yrs
License: GPL-3 OSI
Minimum R: ≥ 3.5.0
Bundled data: 169 KB / 2 files
Download size: 325 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("disbayes")

Format

Jackson, C. (2026). disbayes: Bayesian Multi-State Modelling of Chronic Disease Burden Data (Version 1.1.1) [Computer software]. https://doi.org/10.32614/CRAN.package.disbayes

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

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 disbayes version 1.1.1 [Data set]. HJJB, LLC. Data release v2026-08-23. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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