Package: taxizedb 0.3.2

Tamás Stirling

taxizedb: Offline Access to Taxonomic Databases

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

Authors:Scott Chamberlain [aut], Zebulun Arendsee [aut], Tamás Stirling [ctb, cre]

taxizedb_0.3.2.tar.gz
taxizedb_0.3.2.zip(r-4.6)taxizedb_0.3.2.zip(r-4.5)taxizedb_0.3.2.zip(r-4.4)
taxizedb_0.3.2.tgz(r-4.5-any)taxizedb_0.3.2.tgz(r-4.4-any)
taxizedb_0.3.2.tar.gz(r-4.6-any)taxizedb_0.3.2.tar.gz(r-4.5-any)
taxizedb_0.3.2.tgz(r-4.5-emscripten)taxizedb_0.3.2.tgz(r-4.4-emscripten)
taxizedb.pdf |taxizedb.html
taxizedb/json (API)
NEWS

# Install 'taxizedb' in R:
install.packages('taxizedb', repos = c('https://packages.ropensci.org', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/ropensci/taxizedb/issues

Pkgdown site:https://docs.ropensci.org

On CRAN:

Conda:

itistaxizetaxonomic-databasestaxonomy

6.07 score 32 stars 1 packages 101 scripts 32 downloads 30 exports 42 dependencies

Last updated 19 days ago from:6438f8a6de (on master). Checks:11 OK. Indexed: yes.

TargetResultTotal time
linux-devel-x86_64OK152
pkgdown docsOK158
source / vignettesOK192
linux-release-x86_64OK149
macos-release-arm64OK123
macos-oldrel-arm64OK118
windows-develOK107
windows-releaseOK106
windows-oldrelOK114
wasm-releaseOK113
wasm-oldrelOK182

Exports:childrenclassificationdb_download_coldb_download_gbifdb_download_itisdb_download_ncbidb_download_tpldb_download_wfodb_download_wikidatadb_load_coldb_load_gbifdb_load_itisdb_load_ncbidb_load_tpldb_load_wikidatadb_pathdownstreamname2taxidsql_collectsrc_colsrc_gbifsrc_itissrc_ncbisrc_tplsrc_wfosrc_wikidatataxa_attaxid2nametaxid2ranktdb_cache

Dependencies:bitbit64blobcachemclicliprcpp11crayoncurlDBIdbplyrdigestdplyrfastmapgenericsgluehmshoardrlifecyclemagrittrmemoisepillarpkgconfigplogrprettyunitsprogresspurrrR6rappdirsreadrrlangRSQLitestringistringrtibbletidyrtidyselecttzdbutf8vctrsvroomwithr

Readme and manuals

Help Manual

Help pageTopics
taxizedbtaxizedb-package taxizedb
Retrieve immediate descendents of a taxonchildren
Retrieve the taxonomic hierarchies from local databaseclassification
Download taxonomic databasesdb_download db_download_col db_download_gbif db_download_itis db_download_ncbi db_download_tpl db_download_wfo db_download_wikidata
Load taxonomic databasesdb_load-defunct db_load_col db_load_gbif db_load_itis db_load_ncbi db_load_tpl db_load_wikidata
database pathdb_path
Retrieve all taxa descending from a vector of taxadownstream
Convert species names to taxon IDsname2taxid
Query and get data back into a data.framesql_collect
src - dplyr src objectssrc_col src_gbif src_itis src_ncbi src_taxizedb src_tpl src_wfo src_wikidata
Get taxa at specific scientific rankstaxa_at
Convert taxon IDs to scientific namestaxid2name
Convert taxon IDs to scientific rankstaxid2rank
Cachingtdb_cache