asymptor

1.1.0

Estimate Asymptomatic Cases via Capture/Recapture Methods

0packages depend

3.4Kdownloads / year

85.7%test coverage

13/13checks pass

Overview

About

Maintained by Hugo GrusonFirst published 2020-10-223 releasesCRAN page ↗GitHub ↗

Estimate the lower and upper bound of asymptomatic cases in an epidemic using the capture/recapture methods from Böhning et al. (2020) doi:10.1016/j.ijid.2020.06.009 and Rocchetti et al. (2020) doi:10.1101/2020.07.14.20153445. Note there is currently some discussion about the validity of the methods implemented in this package. You should read carefully the original articles, alongside this answer from Li et al. (2022) doi:10.48550/arXiv.2209.11334 before using this package in your project.

Install

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

install.packages("asymptor", 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("bisaloo/asymptor")

Development version from bisaloo/asymptor. 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-asymptor

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-asymptor

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-asymptor

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

Health

CRAN checks

13OK

Slowest check: 1.0 min · r-oldrel-macos-x86_64

Code health

Yes

Tests · ratio 0.44

85.7%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 173 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

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

Downloads

3.4K

CRAN downloads in the past year

Rank #13,642 · ~9/day · ~285/mo

Releases R versions

Daily download trend is not available in this view yet.

24130 days

76890 days

3.4K1 year

Compare downloads with other packages →

Also on110 r2u29 autocran

Repository

GitHub ↗ bisaloo/asymptor

4Stars

1Forks

1Open issues

0Open PRs

3Releases

78Commits

2Contributors

r-packageepidemiology

License GPL-3.0 · 78 commits · Last activity 2022-10-05 · +33.3% stars, 30d

Stars over time

2024-05-09 · 22026-07-07 · 4

Repository practices

Upstream repositoryBeta

5 development-tooling and community-health practices detected across 5 families in the upstream repository

Checks run against github.com/bisaloo/asymptor on 2026-07-30.

Continuous integration (1)

GitHub Actions

Reproducibility and dev environment (1)

data-raw/

Docs source (1)

README.Rmd

Lint, format, editor (1)

RStudio project

Show all practices

Coverage (1)

Codecov

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

Dependencies

Declared dependencies

7 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.5

Imports (0)

none

LinkingTo (0)

none

Suggests (7)

covr dplyr ggplot2 knitr rmarkdown spelling testthat(>= 3.0.0)

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (1)

Maintainer (1)

Hugo Gruson

Maintainer, Author, Copyright holder

Authors (1)

Hugo Gruson

Maintainer, Author, Copyright holder

Hugo Gruson

Maintainer, Author, Copyright holder

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
1.1.0Latest
2022-10-05 · current release · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
1.0
2020-12-14 · diff ↗
0.2
2020-10-22
R
R 4.0.0 released · 2020-04-24

Package metadata

First published: 2020-10-22
Total releases: 3 / 6 yrs
License: GPL-3 OSI
Minimum R: ≥ 3.5
Download size: 672 KB
Installed size: not tracked yet
With dependencies: not tracked yet

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