taxify

0.4.0

Offline Taxonomic Name Matching Against Darwin Core Backbones

0packages depend

715downloads / year

77.0%test coverage

12/13checks pass

Overview

About

Maintained by Gilles CollingFirst published 2026-06-303 releasesCRAN page ↗GitHub ↗

Match taxonomic names against locally stored Darwin Core backbone databases ('WFO', 'COL', 'GBIF', 'ITIS', 'NCBI Taxonomy', 'Open Tree of Life', 'WoRMS', 'Euro+Med', 'Species Fungorum', 'AlgaeBase', 'FishBase', 'SeaLifeBase', 'Reptile Database', 'LCVP', 'WCVP'). Provides offline fuzzy and exact matching with synonym resolution, hybrid name detection, and a unified output schema across all sources. All heavy computation runs in the 'vectra' C11 columnar engine.

Install

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

install.packages("taxify", 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("gcol33/taxify")

Development version from gcol33/taxify. Installs pak first if it is not already available.

# 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-taxify

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-taxify

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: 9.0 min · r-oldrel-macos-x86_64

Code health

Yes

Tests · ratio 0.62

77.0%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-07-01
7 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 1,401 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 67% structuredCode of conductNoContributing guideNo

Examples that run: 51%
Documented parameters: 100%
Return-value docs: 100%
References docs: 58%

Downloads

715

CRAN downloads in the past year

Rank #14,579 · ~2/day · ~60/mo

Releases R versions

Daily download trend is not available in this view yet.

69630 days

71590 days

7151 year

Compare downloads with other packages →

Repository

GitHub ↗ gcol33/taxify

0Stars

0Forks

0Open issues

0Open PRs

34Releases

309Commits

2Contributors

biodiversitycrandarwin-coreecologyfuzzy-matchinggbifname-matchingnomenclature

309 commits · Last activity 2026-08-01

Releases over time

2026-04-04 · 22026-07-30 · 34

Repository practices

Upstream repositoryBeta

2 development-tooling and community-health practices detected across 2 families in the upstream repository

Checks run against github.com/gcol33/taxify on 2026-07-30.

Continuous integration (1)

GitHub Actions

CRAN release process (1)

cran-comments.md

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

Dependencies

Declared dependencies

17 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.1.0

Imports (4)

curl jsonlite rlang vectra

LinkingTo (0)

none

Suggests (13)

ape DBI GIFT knitr openxlsx2 rmarkdown RSQLite sf taxifydb terra testthat TR8 withr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (1)

Maintainer (1)

Gilles Colling

Author, Maintainer, Copyright holder

Authors (1)

Gilles Colling

Author, Maintainer, Copyright holder

Gilles Colling

Author, Maintainer, Copyright holder

Package Timeline

3 releases. Pick two to compare their code metrics. R releases are shown for context.

0.4.0Latest
2026-07-23 · current release · diff ↗
0.3.4
2026-07-09 · diff ↗
0.2.12
2026-06-30
R
R 4.6.0 released · 2026-04-24

Package metadata

First published: 2026-06-30
Total releases: 3 / 1 yrs
License: MIT + file LICENSE OSI
Additional repositories: gcol33.r-universe.dev
Minimum R: ≥ 4.1.0
Download size: not tracked yet
Installed size: not tracked yet
With dependencies: not tracked yet

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