admiralvaccine

0.6.0

Vaccine Extension Package for ADaM in 'R' Asset Library

0packages depend

4.2Kdownloads / year

96.4%test coverage

13/13checks pass

Overview

About

Maintained by Arjun RubalingamFirst published 2023-06-276 releasesCRAN page ↗GitHub ↗

Programming vaccine specific Clinical Data Interchange Standards Consortium (CDISC) compliant Analysis Data Model (ADaM) datasets in 'R'. Flat model is followed as per Center for Biologics Evaluation and Research (CBER) guidelines for creating vaccine specific domains. ADaM datasets are a mandatory part of any New Drug or Biologics License Application submitted to the United States Food and Drug Administration (FDA). Analysis derivations are implemented in accordance with the "Analysis Data Model Implementation Guide" (CDISC Analysis Data Model Team (2021), https://www.cdisc.org/standards/foundational/adam/adamig-v1-3-release-package). The package is an extension package of the 'admiral' package.

Install

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

install.packages("admiralvaccine", 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("pharmaverse/admiralvaccine")

Development version from pharmaverse/admiralvaccine. 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-admiralvaccine

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-admiralvaccine

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-admiralvaccine

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

Health

CRAN checks

13OK

Slowest check: 2.9 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 1.23

96.4%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

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

Documentation

READMEYes · 497 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 95%
Return-value docs: 100%
References docs: 0%

Downloads

4.2K

CRAN downloads in the past year

Rank #9,419 · ~12/day · ~350/mo

Releases R versions

Daily download trend is not available in this view yet.

43130 days

1.2K90 days

4.2K1 year

Compare downloads with other packages →

Also on198 r2u36 autocran

Repository

GitHub ↗ pharmaverse/admiralvaccine

8Stars

7Forks

3Open issues

0Open PRs

6Releases

1,642Commits

22Contributors

cdiscrrstats

License Apache-2.0 · 1,642 commits · Last activity 2026-07-16 · 0% stars, 30d

Stars over time

2024-08-22 · 62026-07-07 · 8

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/pharmaverse/admiralvaccine on 2026-07-19.

Continuous integration (1)

GitHub Actions

Reproducibility and dev environment (1)

Dev Container

Docs source (1)

README.Rmd

Lint, format, editor (1)

RStudio project

Show all practices

Governance and community (2)

Issue templatesCODEOWNERS

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

Dependencies

Declared dependencies

30 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.5

Imports (14)

admiral admiraldev assertthat (>= 0.2.1)cli dplyr hms lifecycle lubridate magrittr purrr rlang stringr tidyr tidyselect

LinkingTo (0)

none

Suggests (17)

covr devtools diffdf DT knitr lintr metatoolsmethodsminiUI pharmaversesdtm pkgdown rmarkdown roxygen2 spelling testthat tibble usethis

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Code Composition

R 3,510 (54%)Vignettes 1,859 (28%)Rd 1,184 (18%)

Code characteristics

Cyclomatic complexity: 4.0 median / 8 max
Test cases: 35 / 1.23 per code line

Test coverage

Line coverage

96%

Expression

96.7%

Tests / Examples

96.4% / 83% ex

Functions

11 11 exported

Complexity

4 avg / 8 max

Call network

11 nodes / 1 edges

Call graph

Open call graph →

Loading call graph…

Lowest coverage

11 functions

Function	Cyclo	Coverage
derive_vars_crit exp	2	80%
derive_vars_merged_vaccine exp	3	96%
derive_vars_vaxdt exp	4	97%
derive_diam_to_sev_records exp	4	98%
derive_fever_records exp	3	100%
derive_var_aval_adis exp	8	100%

Datasets

Bundled datasets · 4

Name	Class	Rows × Cols	Also ships in
admiralvaccine_adce	tbl_df/tbl/data.frame	44 × 56	–
admiralvaccine_adface	tbl_df/tbl/data.frame	371 × 60	–
admiralvaccine_adis	tbl_df/tbl/data.frame	64 × 102	–
admiralvaccine_adsl	tbl_df/tbl/data.frame	2 × 46	–

People & History

People (28)

Maintainer (1)

Arjun Rubalingam

Author, Maintainer

Authors (11)

Arjun Rubalingam

Author, Maintainer

Lee Armishaw

Author · added in 0.2.0

Author

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Author

Author, Contributor

Author

Contributors (15)

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Contributor

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Funders (3)

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
0.6.0Latest
2026-01-23 · current release · diff ↗
0.5.0
2025-09-18 · diff ↗
R
R 4.5.0 released · 2025-04-11
0.4.0
2025-01-31 · diff ↗
0.3.0
2024-08-29 · diff ↗
R
R 4.4.0 released · 2024-04-24
0.2.0
2024-01-08 · diff ↗
0.1.0
2023-06-27
R
R 4.3.0 released · 2023-04-21

Package metadata

First published: 2023-06-27
Total releases: 6 / 3 yrs
License: Apache License (>= 2)
Minimum R: ≥ 3.5
Bundled data: 13 KB / 4 files
Download size: 198 KB
Installed size: not tracked yet
With dependencies: not tracked yet

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