R Observatory: Metrics for epitabulate version 0.1.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

epitabulate

0.1.0

Tables for Epidemiological Analysis

1packages depend

2.4Kdownloads / year

90.8%test coverage

13/13checks pass

Overview

About

Maintained by Alexander SpinaFirst published 2025-11-131 releasesCRAN page ↗GitHub ↗

Produces tables for descriptive epidemiological analysis. These tables include attack rates, case fatality ratios, and mortality rates (with appropriate confidence intervals), with additional functionality to calculate Mantel-Haenszel odds, risk, and incidence rate ratios. The methods implemented follow standard epidemiological approaches described in Rothman et al. (2008, ISBN:978-0-19-513554-2). This package is part of the 'R4EPIs' project https://R4EPI.github.io/sitrep/.

Install

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

install.packages("epitabulate", 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("R4EPI/epitabulate")

Development version from R4EPI/epitabulate. 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-epitabulate

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-epitabulate

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: 3.7 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.70

90.8%

Coverage · measured lines

100%

Documentation · exports

14

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
OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-05-02
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Show 2 earlier snapshots

ERROR2026-04-25
11 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 620 wordsVignettesNopkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: not tracked
Documented parameters: 97%
Return-value docs: 100%
References docs: 29%

Downloads

2.4K

CRAN downloads in the past year

Rank #13,704 · ~7/day · ~199/mo

Releases R versions

Daily download trend is not available in this view yet.

20630 days

74490 days

2.4K1 year

Compare downloads with other packages →

Also on65 r2u

Repository

GitHub ↗ r4epi/epitabulate

8Stars

0Forks

0Open issues

0Open PRs

3Releases

169Commits

3Contributors

License GPL-3.0 · 169 commits · Last activity 2025-11-14

Stars over time

2024-04-01 · 72026-07-07 · 8

Repository practices

Upstream repositoryBeta

7 development-tooling and community-health practices detected across 6 families in the upstream repository

Checks run against github.com/r4epi/epitabulate on 2026-08-16.

Continuous integration (1)

GitHub Actions

CRAN release process (1)

cran-comments.md

Docs source (1)

README.Rmd

Lint, format, editor (1)

RStudio project

Show all practices

Coverage (1)

Codecov

Governance and community (2)

Issue templatesSupport guide

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

Dependencies

Declared dependencies

17 external dependencies (excludes base and recommended)

Depends (0)

none

Imports (14)

binom dplyr epikit forcats glue gtsummaryMASSpurrr rlang scalesstatstibble tidyr tidyselect

LinkingTo (0)

none

Suggests (5)

broom.helpers cardx covr matchmaker testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

sitrep

Code & Tests

People & History

People (6)

Maintainer (1)

Alexander Spina

Author, Maintainer

Authors (3)

Alexander Spina

Author, Maintainer

Amy Gimma

Author

Zhian N. Kamvar

Author

Contributors (1)

Kate Doyle

Contributor

Copyright holders (1)

Applied Epi Incorporated

Copyright holder

Funders (1)

Medecins Sans Frontieres Operational Centre Amsterdam

Funder

Package Timeline

1 release. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
0.1.0Latest
2026-03-10 · current release
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2025-11-13
Total releases: 1 / 1 yrs
License: GPL-3 OSI
Download size: 29 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("epitabulate")

Format

Spina, A., Applied Epi Incorporated, Medecins Sans Frontieres Operational Centre Amsterdam, Doyle, K., Gimma, A., & Kamvar, Z. N. (2025). epitabulate: Tables for Epidemiological Analysis (Version 0.1.0) [Computer software]. https://doi.org/10.32614/CRAN.package.epitabulate

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 epitabulate version 0.1.0 [Data set]. HJJB, LLC. Data release v2026-08-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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