EpiForsk

0.2.2

Code Sharing at the Department of Epidemiology Research at Statens Serum Institut

0packages depend

4Kdownloads / year

33.0%test coverage

13/13checks pass

Overview

About

Maintained by Kim Daniel JakobsenFirst published 2023-02-105 releasesCRAN page ↗GitHub ↗

This is a collection of assorted functions and examples collected from various projects. Currently we have functionalities for simplifying overlapping time intervals, Charlson comorbidity score constructors for Danish data, getting frequency for multiple variables, getting standardized output from logistic and log-linear regressions, sibling design linear regression functionalities a method for calculating the confidence intervals for functions of parameters from a GLM, Bayes equivalent for hypothesis testing with asymptotic Bayes factor, and several help functions for generalized random forest analysis using 'grf'.

Install

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

install.packages("EpiForsk", 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("Laksafoss/EpiForsk")

Development version from Laksafoss/EpiForsk. 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-epiforsk

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-EpiForsk

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-EpiForsk

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

Health

CRAN checks

13OK

Slowest check: 4.4 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.01

33.0%

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
OK2026-05-02
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-03-10
6 OK · 0 NOTE · 0 WARNING · 8 ERROR · 0 FAILURE

Documentation

READMEYes · 481 wordsVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 69%
Documented parameters: 92%
Return-value docs: 91%
References docs: 6%

Downloads

CRAN downloads in the past year

Rank #7,265 · ~11/day · ~332/mo

Releases R versions

Daily download trend is not available in this view yet.

35030 days

1.4K90 days

4K1 year

Compare downloads with other packages →

Also on122 r2u25 autocran

Repository

GitHub ↗ laksafoss/epiforsk

0Stars

3Forks

1Open issues

0Open PRs

5Releases

212Commits

6Contributors

epidemiologyr

212 commits · Last activity 2026-03-30

Forks over time

2023-01-10 · 32026-07-07 · 3

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/laksafoss/epiforsk on 2026-07-19.

Continuous integration (1)

GitHub Actions

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

29 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.2

Imports (24)

broom cowplot data.table dplyr forcats ggplot2 glue grf gridExtra Hmisc MatchItmethodsnnetpatchwork policytree progressr purrr rlang stringr surveysurvivalsvyVGAM tidyr VGAM

LinkingTo (0)

none

Suggests (9)

cli CVXR furrr future ggsci knitrparallelrmarkdown testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Code Composition

R 9,406 (74%)Rd 2,847 (22%)Vignettes 444 (3%)

Code characteristics

Object systems

S37

Cyclomatic complexity: 4.0 median / 88 max
Test cases: 4 / 0.01 per code line

Test coverage

Line coverage

Expression

0.4%

Tests / Examples

0.3% / 31% ex

Functions

43 27 exported

Complexity

16.3 avg / 88 max

Call network

43 nodes / 16 edges

Call graph

Open call graph →

Loading call graph…

Lowest coverage

43 functions

Function	Cyclo	Coverage
CATESurface exp	15	0%
CForBenefit exp	65	0%
CausalForestDynamicSubgroups exp	10	0%
CovariateBalance exp	88	0%
DiscreteCovariatesToOneHot exp	6	0%
FlattenDatesDT exp	6	0%

Datasets

Bundled datasets · 1

Name	Class	Rows × Cols	Also ships in
adls_timevarying_region_data	tbl_df/tbl/data.frame	546 × 7	–

People & History

People (6)

Maintainer (1)

Kim Daniel Jakobsen

Author, Maintainer · added in 0.1.1

Authors (6)

Kim Daniel Jakobsen

Author, Maintainer · added in 0.1.1

Mikael Andersson

Author · added in 0.1.1

Anders Husby

Author · added in 0.1.1

Anna Laksafoss

Author

Klaus Rostgaard

Author · added in 0.1.1

Emilia Myrup Thiesson

Author · added in 0.1.1

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
0.2.2Latest
2026-03-30 · current release · diff ↗
unarchivedReturned to CRAN
2026-03-30
archivedRemoved from CRAN
2026-03-28
issues were not corrected in time
0.2.1
2026-03-20 · diff ↗
0.2.0
2025-08-20 · diff ↗
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
0.1.1
2024-02-26 · diff ↗
R
R 4.3.0 released · 2023-04-21
0.0.1
2023-02-10
R
R 4.2.0 released · 2022-04-22

Package metadata

First published: 2023-02-10
Total releases: 5 / 3 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 4.2
Bundled data: 5.4 KB / 2 files
Download size: 930 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Epidemiology

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