taxizedb

0.3.2

Offline Access to Taxonomic Databases

0packages depend

7.1Kdownloads / year

58.8%test coverage

12/13checks pass

Overview

About

Maintained by Tamás StirlingFirst published 2017-05-047 releasesCRAN page ↗GitHub ↗

Download taxonomic databases, convert them into 'SQLite' format, and query them locally for fast, reliable, and reproducible access to taxonomic data.

Install

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

install.packages("taxizedb", 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("ropensci/taxizedb")

Development version from ropensci/taxizedb. 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-taxizedb

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-taxizedb

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-taxizedb

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

Health

CRAN checks

1NOTE12OK

Failing flavors

NOTE r-devel-linux-x86_64-debian-gcc

Slowest check: 1.8 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 0.28

58.8%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

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

READMENoVignettesNopkgdown siteNoNEWSYes · 33% structuredCode of conductNoContributing guideNo

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

Downloads

7.1K

CRAN downloads in the past year

Rank #10,555 · ~20/day · ~594/mo

Releases R versions

Daily download trend is not available in this view yet.

24930 days

97090 days

7.1K1 year

Compare downloads with other packages →

Also on106 r2u1 autocran1.5K conda_forge

Repository

GitHub ↗ ropensci/taxizedb

35Stars

8Forks

16Open issues

1Open PRs

8Releases

320Commits

9Contributors

taxonomytaxonomic-databasesitisrstatstaxizerr-package

320 commits · Last activity 2025-10-28 · 0% stars, 30d

Stars over time

2025-06-24 · 322026-07-07 · 35

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/ropensci/taxizedb on 2026-08-02.

Continuous integration (2)

GitHub ActionsCircleCI

Reproducibility and dev environment (1)

Makefile

CRAN release process (1)

cran-comments.md

Docs source (1)

README.Rmd

Show all practices

Research and citation (1)

codemeta.json

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

13 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.1

Imports (11)

curl DBI RSQLite dplyr (>= 0.7.0)tibble rlang readr dbplyr magrittr hoardr vroom

LinkingTo (0)

none

Suggests (2)

taxize testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (3)

Maintainer (1)

Tamás Stirling

Contributor, Maintainer · added in 0.3.1

Authors (2)

Zebulun Arendsee

Author · added in 0.2.0

Scott Chamberlain

Author

Contributors (1)

Tamás Stirling

Contributor, Maintainer · added in 0.3.1

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
0.3.2Latest
2025-06-18 · current release · diff ↗
unarchivedReturned to CRAN
2025-06-18
R
R 4.5.0 released · 2025-04-11
archivedRemoved from CRAN
2024-08-31
policy violation Spamming personal email address of team member in HTML
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
0.3.1
2023-04-03 · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
0.3.0
2021-01-15 · diff ↗
0.2.2
2020-08-26 · diff ↗
0.2.0
2020-08-13 · diff ↗
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
R
R 3.5.0 released · 2018-04-23

Show 3 earlier events

0.1.4
2017-06-21 · diff ↗
0.1.0
2017-05-04
R
R 3.4.0 released · 2017-04-21

Package metadata

First published: 2017-05-04
Total releases: 7 / 9 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 4.1
Download size: 37 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Report a problem with this page →