Package: APCalign 2.0.0

Elizabeth Wenk

APCalign: Resolving Plant Taxon Names Using the Australian Plant Census

The process of resolving and updating taxon names is necessary when working with biodiversity data. 'APCalign' uses the Australian Plant Census (APC) and the Australian Plant Name Index (APNI) to align and update plant taxon names to current, accepted standards. 'APCalign' also supplies information about the establishment status (i.e. native or introduced) of plant taxa across different states/territories.

Authors:Elizabeth Wenk [aut, cre, cph], Daniel Falster [aut, ctb], Will Cornwell [aut, ctb], Fonti Kar [aut, ctb], Carl Boettiger [ctb]

APCalign_2.0.0.tar.gz
APCalign_2.0.0.zip(r-4.7)APCalign_2.0.0.zip(r-4.6)APCalign_2.0.0.zip(r-4.5)
APCalign_2.0.0.tgz(r-4.6-any)APCalign_2.0.0.tgz(r-4.5-any)
APCalign_2.0.0.tar.gz(r-4.7-any)APCalign_2.0.0.tar.gz(r-4.6-any)
APCalign_2.0.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
APCalign/json (API)

# Install 'APCalign' in R:
install.packages('APCalign', repos = c('https://traitecoevo.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/traitecoevo/apcalign/issues

Pkgdown/docs site:https://traitecoevo.github.io

Datasets:

On CRAN:

Conda:

7.14 score 5 stars 1 packages 38 scripts 671 downloads 16 exports 39 dependencies

Last updated from:bb51629308. Checks:7 NOTE, 2 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64NOTE216
source / vignettesOK185
linux-release-x86_64NOTE220
macos-release-arm64NOTE183
macos-oldrel-arm64NOTE218
windows-develNOTE255
windows-releaseNOTE237
windows-oldrelNOTE243
wasm-releaseOK124

Exports:align_taxaclear_cached_resourcescreate_species_state_origin_matrixcreate_taxonomic_update_lookupdefault_versionget_apc_genus_family_lookupget_versionsload_taxonomic_resourcesnative_anywhere_in_australiastandardise_namesstandardise_taxon_rankstate_diversity_countsstrip_namesstrip_names_extrasynonyms_for_accepted_namesupdate_taxonomy

Dependencies:arrowaskpassassertthatbitbit64clicliprcpp11crayoncurldplyrgenericsgluehmshttrjsonlitelifecyclemagrittrmimeopensslpillarpkgconfigprettyunitsprogresspurrrR6readrrlangstringdiststringistringrsystibbletidyselecttzdbutf8vctrsvroomwithr

APCalign
Installation | Retrieve taxonomic resources | Align and update plant taxon names | Plant established status across states/territories | Closer look at name standardisation with 'APCalign' | Aligning names to APC and APNI | Configuring matching precision and aligned output | Updating to APC-accepted names | Taxonomic resources used for updating names | Name updates at different taxonomic levels | Taxonomic splits | Generating lists of synonyms
Rendered fromAPCalign.Rmdusingknitr::rmarkdown

Last update: 2026-03-26
Started: 2023-08-01

Methods for updating taxon names in APCalign
Aligning taxon names with taxon concepts/names in APC and APNI | Updating taxonomy | Outputs of APCalign
Rendered fromupdating-taxon-names.Rmdusingknitr::rmarkdown

Last update: 2026-03-26
Started: 2023-09-08