R Observatory: Metrics for o2ools version 0.0.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

o2ools

0.0.1Package record

Tools for 'outbreaker2'

0packages depend

5.7Kdownloads / year

94.6%test coverage

13/13flavors OK

Overview

About

Maintained by Cyril GeismarCRAN page ↗GitHub ↗Website ↗Issues ↗

Streamlines the post-processing, summarization, and visualization of 'outbreaker2' output via a suite of helper functions. Facilitates tidy manipulation of posterior samples, integration with case metadata, generation of diagnostic plots and summary statistics.

Changes in 0.0.1

Initial CRAN submission.

From NEWS.md in the release

Install

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

install.packages("o2ools", 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("CyGei/o2ools")

Development version from CyGei/o2ools. 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-o2ools

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-o2ools

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-o2ools

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
OK13 OK2026-06-09
ERROR12 OK, 1 ERROR2026-06-08
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.0.1

READMEYes · 32 wordsVignettesYes · 1 · dynamicNEWSYes · 67% structured · mentions 0.0.1Citation fileNoWebsiteYes · pkgdown

Help pages: 16 (3 internal)
Examples that run: 100%11 run in a plain check
Exported functions with examples: 91%
Documented parameters: 87%
Return-value docs: 100%
Help pages citing references: 0%

Vignettes (1)

my-vignette-name HTML

How these are measured

Downloads

5.7K

CRAN downloads in the past year

Rank #12,822 · ~16/day · ~474/mo

Releases R versions

Daily download trend is not available in this view yet.

33530 days

86890 days

5.7K1 year

Compare downloads with other packages →

Also on65 r2u6 autocran

How downloads are counted

Repository

cygei/o2ools ↗Account: CyGei

0Stars

0Forks

1Open issues

0Open PRs

0Releases

Last activity 2025-12-10

Responsiveness

not measured

How these are measured

PracticesBeta

9 development-tooling and community-health practices detected across 4 families in the upstream repository

Checks run against github.com/cygei/o2ools 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 (4)

README.Rmdpkgdown

GitHub Pages site last deployed 2025-12-10 · The repository has a site deploy workflow

pkgdown site last built 2025-12-10

CRAN release process (2)

cran-comments.mdCRAN-SUBMISSION

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

14 external dependencies (excludes base and recommended)

Installing o2ools adds no packages beyond those that come with R.

Depends (1)

R >= 3.5

Imports (0)

none

LinkingTo (0)

none

Suggests (14)

knitr rmarkdown testthat outbreaker2 incidence2 mixtree epicontacts dplyr tidyr furrr ggplot2 igraph tidygraph ggraph

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 (1)

Cyril Geismar

Author, Maintainer since 0.0.1 (2025)

Releases (1)

R
R 4.6.0 released · 2026-04-24
0.0.1Latest
record
2025-06-06 · current release
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2025-06-06
Total releases: 1 / 1 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.5
Bundled data: 14 KB / 2 files
Download size: 1.1 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("o2ools")

Format

Geismar, C. (2025). o2ools: Tools for 'outbreaker2' (Version 0.0.1) [Computer software]. https://doi.org/10.32614/CRAN.package.o2ools

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

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 o2ools version 0.0.1 [Data set]. HJJB, LLC. Data release v2026-10-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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