R Observatory: Metrics for ethnobotanyR version 0.3.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

ethnobotanyR

0.3.0Package record

Ethnobotanical Analysis, Decision-Framing, and TEK Modeling

0packages depend

4.8Kdownloads / year

27.5%test coverage

13/13flavors OK

Overview

About

Maintained by Cory WhitneyCRAN page ↗GitHub ↗Issues ↗

Tools for quantifying Traditional Ecological Knowledge (TEK), modeling TEK in decision frameworks, and designing structured decision-framing exercises in conservation and development contexts. The package implements quantitative ethnobotany indices (Use Value, Relative Frequency of Citation, etc.) but positions them within a larger framework of Bayesian modeling and participatory decision analysis. Includes critical assessment of indices' limitations and case studies of participatory workshops.

Changes in 0.3.0

New models, data and tests; fixes to ethno_bayes_consensus() and ethno_boot().

Breaking change

ethno_bayes_consensus(): responses must be whole numbers from 0 to answers - 1 (0/1 for binary data) and result rows are labelled 0 and 1. Earlier results were wrong because 0 responses were ignored. Competence (prior_for_answers) is required.

New functions and data

ethno_beta(): Beta-binomial probability of use per species and use. Default for small samples and rare uses.
ethno_saturation(): informant saturation curve.
ethno_consensus(): consensus with competence estimated from the data (EM).
homegardens: 102 homegardens in southwestern Uganda, 225 species, 14 uses, 3,961 use reports, as analyzed in Whitney et al. (2018). One informant per garden. Companion tables homegardens_info (garden covariates) and homegardens_species (life form, family, native).
Tests (testthat).

Bug fixes

ethno_bayes_consensus(): corrected the likelihood for more than two answers.
ethno_boot(): n2 defaults to the number of observations. New use_weights argument. Warns when all observations are identical (zero-width interval).

Show all changes in 0.3.0Hide the rest of the changes in 0.3.0

Vignettes no longer rewrite .bib files at build time.
honest_ethnobotany: fixed swapped lower/upper labels.
TEK modeling vignette: network chunk runs and compares decisions. Weighted pooling uses effective sample size. Removed arbitrary pseudo-count mapping.

Vignettes

Modeling and TEK vignettes use homegardens. The TEK vignette adds a network learned from the survey.

From NEWS.md in the release

Install

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

install.packages("ethnobotanyR", 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("CWWhitney/ethnobotanyR")

Development version from CWWhitney/ethnobotanyR. 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-ethnobotanyr

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-ethnobotanyR

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-ethnobotanyR

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: 5.2 min · r-release-macos-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 0.3.0

READMEYes · 516 wordsVignettesYes · 7 · evaluation depends on the environmentNEWSYes · 100% structured · mentions 0.3.0Citation fileNoWebsitenot declared in DESCRIPTION

Help pages: 23
Examples that run: 100%20 run in a plain check
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 87%

Vignettes (7)

How these are measured

Downloads

4.8K

CRAN downloads in the past year

Rank #5,735 · ~13/day · ~399/mo

Releases R versions

Daily download trend is not available in this view yet.

48630 days

1.5K90 days

4.8K1 year

Compare downloads with other packages →

Also on98 r2u5 autocran

How downloads are counted

Repository

cwwhitney/ethnobotanyr ↗Account: CWWhitney

11Stars

21Forks

22Open issues

0Open PRs

6Releases

399Commits

3Commit identities

ethnobotanyindicesquantitative-methods

399 commits · Last activity 2026-10-06 · 0% stars, 30d

Responsiveness

How these are sampled

PRs merged (all time): 94%
Median days to close, 50 most recently updated closed issues: 462
Median days to close, 50 most recently updated closed PRs: 0

Stars over time

2024-06-21 · 92026-07-07 · 11

How these are measured

PracticesBeta

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

Checks run against github.com/cwwhitney/ethnobotanyr on 2026-10-22.

Docs source (1)

README.Rmd

Reproducibility and dev environment (1)

data-raw/

CRAN release process (2)

cran-comments.mdCRAN-SUBMISSION

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v4 (2026-10-20)

AI coding toolsBeta

This repository shows signs of AI coding tools.

Claude Codefirst seen on or before 2026-10-06
Commits: at least 25 crediting it in the message

Models named in its commits

Claude Sonnet 5.525 commits · Oct 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

24 external dependencies (excludes base and recommended)

Installing ethnobotanyR adds 40 packages (20 with compiled code, 42 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, ggalluvial 2.7 MB.

Depends (1)

R >= 3.5.0

Imports (8)

circlize cowplot dplyr ggalluvial ggplot2 ggridges reshape2 magrittr

LinkingTo (0)

none

Suggests (16)

lme4 testthat broom knitr rmarkdown tidyr stringr purrr tibble vegan bnlearn causaleffect gRain pbapply tidyselect tidyverse

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)

Cory Whitney

Author, Maintainer since 0.1.0 (2019)

Releases (11)

Pick two releases to compare their code metrics.

0.3.0Latest
record
2026-10-16 · current release · diff ↗ ·
added 3 exports
ethno_beta, ethno_consensus, ethno_saturation
·
listed once in CRAN's queue
Seen in one reading of CRAN's incoming queue, at 2026-10-16 07:45 UTC, so it stayed less than the time between readings.
R
R 4.6.0 released · 2026-04-24
0.2.0
record
2026-02-25 · 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
0.1.9
record
2022-12-17 · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
0.1.8
record
2021-01-06 · diff ↗ ·
added 1 export
ethno_alluvial
R
R 4.0.0 released · 2020-04-24
0.1.7
record
2020-01-30 · diff ↗ ·
added 2 exports
ethno_bayes_consensus, ethno_boot
0.1.6
record
2019-10-07 · diff ↗ ·
removed 2 exports
ethnoChordUser, ethnobotanyChord
0.1.5
record
2019-08-06 · diff ↗ ·
added 3 exports
CVe, ethnobotanyChord, simple_UVs
R
R 3.6.0 released · 2019-04-26
0.1.4
record
2019-02-13 · diff ↗ ·
added 2 exports
FLs, Radial_plot

Show 4 earlier eventsHide 4 earlier events

0.1.3
record
2019-01-21 · diff ↗
0.1.2
record
2019-01-19 · diff ↗
0.1.0
record
2019-01-08
R
R 3.5.0 released · 2018-04-23

Across CRAN, the median accepted release of the past year spent 26 hours in the queue, 90% under 11 days.How queue time is measured

Package metadata

First published: 2019-01-08
Total releases: 11 / 7 yrs
License: GPL
Minimum R: ≥ 3.5.0
Bundled data: 13 KB / 4 files
Download size: 3.5 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("ethnobotanyR")

Format

Whitney, C. (2026). ethnobotanyR: Ethnobotanical Analysis, Decision-Framing, and TEK Modeling (Version 0.3.0) [Computer software]. https://doi.org/10.32614/CRAN.package.ethnobotanyR

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 ethnobotanyR version 0.3.0 [Data set]. HJJB, LLC. Data release v2026-10-25. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.

Report a problem with this page →