R Observatory: Metrics for epiworldRcalibrate version 0.1.4

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

epiworldRcalibrate

0.1.4Package record

Fast and Effortless Calibration of Agent-Based Models using Machine Learning

0packages depend

1.9Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Sima NajafzadehkhoeiCRAN page ↗GitHub ↗Website ↗Issues ↗Declared funder: Centers for Disease Control and Prevention

Provides tools and pre-trained Machine Learning [ML] models for calibration of Agent-Based Models [ABMs] built with the R package 'epiworldR'. Implements methods described in Najafzadehkhoei, Vega Yon, Modenesi, and Meyer (2025) doi:10.48550/arXiv.2509.07013. Users can automatically calibrate ABMs in seconds with pre-trained ML models, effectively focusing on simulation rather than calibration. Bridges a gap by allowing public health practitioners to run their own ABMs without the advanced technical expertise often required by calibration.

Install

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

install.packages("epiworldRcalibrate", 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("sima-njf/epiworldRcalibrate")

Development version from sima-njf/epiworldRcalibrate. 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-epiworldrcalibrate

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

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-epiworldRcalibrate

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-epiworldRcalibrate

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 1.4 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK12 OK2026-04-25
NOTE11 OK, 3 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.1.4

READMEYes · 279 wordsVignettesNoNEWSYes · 67% structured · does not mention 0.1.4Citation fileYes · cites a publicationWebsiteYes · pkgdown

Help pages: 15 (6 internal)includes a package overview page
Examples that run: 67%2 run in a plain check · 1 never run
Exported functions with examples: 14%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

How these are measured

Downloads

1.9K

CRAN downloads in the past year

Rank #20,476 · ~5/day · ~155/mo

Releases R versions

Daily download trend is not available in this view yet.

25030 days

64090 days

1.9K1 year

Compare downloads with other packages →

Also on92 r2u7 autocran

How downloads are counted

Repository

sima-njf/epiworldrcalibrate ↗Account: sima-njf

1Stars

2Forks

3Open issues

1Open PRs

0Releases

137Commits

4Commit identities

agent-based-modelepidemiologyinfectious-disease-modelingepiworldr-calibration-simulation

137 commits · Last activity 2026-08-16 · 0% stars, 30d · The default branch showed an older version (0.1.3) than CRAN on 2026-10-11

Responsiveness

How these are sampled

PRs merged (all time): 85%
Median days to close, 50 most recently updated closed issues: 1
Median days to close, 50 most recently updated closed PRs: 0

Stars over time

2026-04-02 · 12026-07-07 · 1

How these are measured

PracticesBeta

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

Checks run against github.com/sima-njf/epiworldrcalibrate on 2026-10-11.

Continuous integration (2)

GitHub ActionsR CMD check workflow

The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel

Docs source (3)

pkgdown

GitHub Pages site last deployed 2026-08-16 · The repository has a site deploy workflow

pkgdown site last built 2025-11-18, before release 0.1.4 (2026-04-02)

Coverage (1)

Coverage reporting

Reproducibility and dev environment (3)

data-raw/MakefileDev Container

Show all practicesHide 1 practice

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v3 (2026-09-26)

AI coding toolsBeta

This repository shows signs of AI coding tools.

GitHub Copilotfirst seen 2025-11-18
Pull request: opened by its own account
Commits: 1 by its own account · at least 1 crediting it in the message
Claude Codefirst seen 2026-08-06
Pull request it wrote: opened by a project member
Commits: at least 1 crediting it in the message
Codexfirst seen 2026-08-15
Commits: at least 1 crediting it in the message

Review tools

Copilot code review
Commits: at least 1 accepting its review suggestions

Models named in its commits

Claude Opus 51 commit · Aug 2026

Counts are commits, not lines of code. Commits by a tool's accounts count once across all of its accounts. Commits crediting it are the largest count among its credit lines, a minimum.How this is detected·Detection ruleset v4 (updated 2026-09-27)

Dependencies

Declared dependencies

3 external dependencies (excludes base and recommended)

Installing epiworldRcalibrate adds 10 packages (7 with compiled code, 5.5 MB of source tarballs). Heaviest: Rcpp 1.8 MB, reticulate 1.6 MB, jsonlite 1.0 MB.

Depends (1)

R >= 3.5

Imports (2)

reticulateutils

LinkingTo (0)

none

Suggests (2)

testthat epiworldR

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (5)

Sima Najafzadehkhoei

Author, Maintainer since 0.1.2 (2026)

Bernardo Modenesi

Author

George Vega Yon

Author

Jake Wagoner

Author · added in 0.1.4

Centers for Disease Control and Prevention

Funder

Award number 1U01CK000585; 75D30121F00003

Releases (2)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
0.1.4Latest
record
2026-04-02 · current release · diff ↗
0.1.2
record
2026-02-18
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2026-02-18
Total releases: 2 / 1 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.5
Bundled data: 24 KB / 2 files
Download size: 5.4 MB

Cite

Cite this package

Run in R for the authors' entry:

citation("epiworldRcalibrate")

The package provides a citation file, so citation() returns the authors' own entry.

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 epiworldRcalibrate version 0.1.4 [Data set]. HJJB, LLC. Data release v2026-10-19. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-19, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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