R Observatory: Metrics for epiCo version 1.0.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

epiCo

1.0.1

Statistical and Viz Tools for Vector-Borne Diseases in Colombia

0packages depend

2.7Kdownloads / year

92.1%test coverage

13/13checks pass

Overview

About

Maintained by Juan D. UmañaFirst published 2024-06-282 releasesCRAN page ↗GitHub ↗

Provides statistical and visualization tools for the analysis of demographic indicators, and spatio-temporal behavior and characterization of outbreaks of vector-borne diseases (VBDs) in Colombia. It implements travel times estimated in Bravo-Vega C., Santos-Vega M., & Cordovez J.M. (2022), and the endemic channel method (Bortman, M. (1999) https://iris.paho.org/handle/10665.2/8562).

Install

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

install.packages("epiCo", 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("epiverse-trace/epiCo")

Development version from epiverse-trace/epiCo. 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-epico

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-epiCo

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-epiCo

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

Health

CRAN checks

13OK

Slowest check: 3.2 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.33

92.1%

Coverage · measured lines

100%

Documentation · exports

15

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

Documentation

READMEYes · 550 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 99%
Return-value docs: 100%
References docs: 0%

Downloads

2.7K

CRAN downloads in the past year

Rank #14,939 · ~7/day · ~222/mo

Releases R versions

Daily download trend is not available in this view yet.

17130 days

70290 days

2.7K1 year

Compare downloads with other packages →

Also on226 r2u14 autocran

Repository

GitHub ↗ epiverse-trace/epico

12Stars

1Forks

7Open issues

3Open PRs

2Releases

250Commits

6Contributors

rdemographicsr-packagespatio-temporal-analysisdecision-supportoutbreak-analysiscolombiavector-borne-diseases

250 commits · Last activity 2025-06-24 · -7.7% stars, 30d

Stars over time

2025-07-01 · 132026-08-11 · 12

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/epiverse-trace/epico on 2026-08-09.

Continuous integration (1)

GitHub Actions

CRAN release process (1)

cran-comments.md

Research and citation (1)

CITATION.cff

Lint, format, editor (2)

lintrRStudio project

Show all practices

Coverage (1)

Codecov

Governance and community (1)

Issue templates

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

Dependencies

Declared dependencies

18 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.0.0

Imports (15)

dplyr ggplot2 ggraphgrDevicesigraph incidence leaflet lubridate magrittr rlang scales spdepstatstreemapifyutils

LinkingTo (0)

none

Suggests (6)

checkmate covr knitr rmarkdown spelling testthat (>= 3.0.0)

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (4)

Maintainer (1)

Juan D. Umaña

Author, Maintainer, Copyright holder

Authors (3)

Juan D. Umaña

Author, Maintainer, Copyright holder

Juan Montenegro-Torres

Author

Julian Otero

Author

Contributors (1)

Hugo Gruson

Contributor

Copyright holders (1)

Juan D. Umaña

Author, Maintainer, Copyright holder

Package Timeline

2 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
1.0.1Latest
2025-01-15 · current release · diff ↗
unarchivedReturned to CRAN
2025-01-15
archivedRemoved from CRAN
2025-01-10
issues were not corrected in time
1.0.0
2024-06-28
R
R 4.4.0 released · 2024-04-24

Package metadata

First published: 2024-06-28
Total releases: 2 / 2 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 4.0.0
Bundled data: 408 KB / 3 files
Download size: 3.8 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Epidemiology

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("epiCo")

The authors publish a CITATION.cff, so they have said how they want this cited. Run citation() and use what it gives you.

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 epiCo version 1.0.1 [Data set]. HJJB, LLC. Data release v2026-08-15. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-15, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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