Package: taxonAlign 0.0.0.9001
Fonti Kar
taxonAlign: Align and Update Taxonomic Names Against Any Taxonomic Reference
Matches lists of raw taxon names, including misspelt, informal and morphospecies names, to a taxonomic reference, and updates them to their currently accepted names. The reference can be one or more released datasets (versioned, so results are reproducible) or the user's own tables, in a documented format, at any combination of taxonomic ranks. The companion package taxonAlign.dataprep builds and releases those datasets, and helps users turn their own references into the format.
Authors:
taxonAlign_0.0.0.9001.tar.gz
taxonAlign_0.0.0.9001.zip(r-4.7-any)taxonAlign_0.0.0.9001.zip(r-4.6-any)taxonAlign_0.0.0.9001.zip(r-4.5-any)
taxonAlign_0.0.0.9001.tgz(r-4.6-any)taxonAlign_0.0.0.9001.tgz(r-4.5-any)
taxonAlign_0.0.0.9001.tar.gz(r-4.7-any)taxonAlign_0.0.0.9001.tar.gz(r-4.6-any)
taxonAlign_0.0.0.9001.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
taxonAlign/json (API)
| # Install 'taxonAlign' in R: |
| install.packages('taxonAlign', repos = c('https://traitecoevo.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/traitecoevo/taxonalign/issues
Last updated from:677a656b6f. Checks:7 WARNING, 1 ERROR, 1 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel | WARNING | 172 | ||
| source / vignettes | ERROR | 195 | ||
| linux-release | WARNING | 147 | ||
| macos-release | WARNING | 117 | ||
| macos-oldrel | WARNING | 110 | ||
| windows-devel | WARNING | 422 | ||
| windows-release | WARNING | 194 | ||
| windows-oldrel | WARNING | 183 | ||
| wasm-release | OK | 111 |
Exports:align_taxacheck_taxonomic_referencecreate_taxonomic_update_lookupdata_release_datasetsdata_release_versionsdownload_data_release_filesload_taxonomic_resourcesprepare_taxonomic_resourcestaxonomic_reference_schemaupdate_taxa
Dependencies:APCalignarrowaskpassassertthatbitbit64clicliprcpp11crayoncurldplyrgenericsgluehmshttrjsonlitelifecyclemagrittrmimenanoparquetopensslpillarpkgconfigprettyunitsprogresspurrrR6readrrlangstringdiststringistringrsystibbletidyselecttzdbutf8vctrsvroomwithr
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Align raw taxon names to a prepared taxonomic reference | align_taxa |
| Check a table is in taxonAlign's taxonomic reference format | check_taxonomic_reference |
| Align and update a list of taxon names in one call | create_taxonomic_update_lookup |
| List the datasets in a taxonAlign data release | data_release_datasets |
| List the available taxonAlign data releases | data_release_versions |
| Download files from a taxonAlign data release | download_data_release_files |
| Load released taxonomic reference data | load_taxonomic_resources |
| Prepare a combined taxonomic reference table for name matching | prepare_taxonomic_resources |
| The taxonomic reference format taxonAlign matches against | taxonomic_reference_schema |
| Resolve aligned names forward to their current accepted name | update_taxa |