EpiReport

1.0.4

Epidemiological Report

0packages depend

3.7Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Lore MerdrignacFirst published 2018-11-147 releasesCRAN page ↗

Drafting an epidemiological report in 'Microsoft Word' format for a given disease, similar to the Annual Epidemiological Reports published by the European Centre for Disease Prevention and Control. Through standalone functions, it is specifically designed to generate each disease specific output presented in these reports and includes: - Table with the distribution of cases by Member State over the last five years; - Seasonality plot with the distribution of cases at the European Union / European Economic Area level, by month, over the past five years; - Trend plot with the trend and number of cases at the European Union / European Economic Area level, by month, over the past five years; - Age and gender bar graph with the distribution of cases at the European Union / European Economic Area level. Two types of datasets can be used: - The default dataset of dengue 2015-2019 data; - Any dataset specified as described in the vignette.

Install

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

install.packages("EpiReport", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

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-epireport

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-EpiReport

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-EpiReport

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

Health

CRAN checks

13OK

Slowest check: 2.6 min · r-devel-linux-x86_64-fedora-clang

Code health

None

Tests · ratio 0.00

not tracked

Coverage

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 · 179 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 33% structuredCode of conductNoContributing guideNo

Examples that run: 96%
Documented parameters: 91%
Return-value docs: 54%
References docs: 0%

Downloads

3.7K

CRAN downloads in the past year

Rank #11,813 · ~10/day · ~311/mo

Releases R versions

Daily download trend is not available in this view yet.

29530 days

90390 days

3.7K1 year

Compare downloads with other packages →

Also on135 r2u33 autocran40 c2d4u

Repository

GitHub ↗ epiconcept-paris/epireport

1Stars

0Forks

0Open issues

0Open PRs

8Releases

146Commits

6Contributors

License EUPL-1.2 · 146 commits · Last activity 2025-05-02 · 0% stars, 30d

Stars over time

2025-10-09 · 12026-07-07 · 1

Repository practices

Upstream repositoryBeta

3 development-tooling and community-health practices detected across 3 families in the upstream repository

Checks run against github.com/epiconcept-paris/epireport on 2026-07-19.

Continuous integration (1)

GitHub Actions

Docs source (1)

README.Rmd

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

10 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.5.0

Imports (8)

officer flextable zoo png dplyr tidyr tidyselect ggplot2

LinkingTo (0)

none

Suggests (2)

knitr rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Code Composition

Other 71,785 (92%)R 3,938 (5%)Rd 1,859 (2%)Vignettes 587 (1%)

Code characteristics

Cyclomatic complexity: 3.0 median / 27 max

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

28 28 exported

Complexity

7.4 avg / 27 max

Call network

28 nodes / 41 edges

Call graph

Open call graph →

Loading call graph…

Lowest coverage

Per-function coverage is not measured for this package yet.

Datasets

Bundled datasets · 4

Name	Class	Rows × Cols	Also ships in
AERparams	data.frame	53 × 24	–
DENGUE2019	data.frame	44,332 × 11	–
MSCode	data.frame	32 × 4	–
SALM2016	data.frame	60,775 × 18	–

People & History

People (4)

Maintainer (1)

Lore Merdrignac

Author, Contractor, Maintainer

Authors (4)

Lore Merdrignac

Author, Contractor, Maintainer

Joana Gomes Dias

Author, Funder

Tommi Karki

Author, Funder

Esther Kissling

Author, Contractor

Funders (2)

Joana Gomes Dias

Author, Funder

Tommi Karki

Author, Funder

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
1.0.4Latest
2025-05-02 · current release · diff ↗
1.0.3
2025-04-18 · diff ↗
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
R
R 4.2.0 released · 2022-04-22
1.0.2
2021-07-05 · diff ↗
R
R 4.1.0 released · 2021-05-18
1.0.1
2021-02-04 · diff ↗
1.0.0
2021-01-06 · diff ↗
0.1.1
2020-05-11 · diff ↗
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
0.1.0
2018-11-14
R
R 3.5.0 released · 2018-04-23

Package metadata

First published: 2018-11-14
Total releases: 7 / 8 yrs
License: EUPL
Minimum R: ≥ 3.5.0
Bundled data: 358 KB / 4 files
Download size: 3.5 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Epidemiology

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