Package: occCite 0.6.2.9000

Hannah L. Owens

occCite: Querying and Managing Large Biodiversity Occurrence Datasets

Facilitates the gathering of biodiversity occurrence data from disparate sources. Metadata is managed throughout the process to facilitate reporting and enhanced ability to repeat analyses.

Authors:Hannah L. Owens [aut, cre], Cory Merow [aut], Brian Maitner [aut], Jamie M. Kass [aut], Vijay Barve [aut], Robert P. Guralnick [aut], Damiano Oldoni [rev]

occCite_0.6.2.9000.tar.gz
occCite_0.6.2.9000.zip(r-4.7-any)occCite_0.6.2.9000.zip(r-4.6-any)occCite_0.6.2.9000.zip(r-4.5-any)
occCite_0.6.2.9000.tgz(r-4.6-any)occCite_0.6.2.9000.tgz(r-4.5-any)
occCite_0.6.2.9000.tar.gz(r-4.7-any)occCite_0.6.2.9000.tar.gz(r-4.6-any)
occCite_0.6.2.9000.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
occCite/json (API)

# Install 'occCite' in R:

install.packages('occCite', repos = c('https://packages.ropensci.org', 'https://cloud.r-project.org'))

Reviews:rOpenSci Software Review #407

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

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

Datasets:

myOccCiteObject - Results of an occCite search for *Protea cynaroides*

On CRAN:

biodiversity-data biodiversity-informatics biodiversity-standards citations museum-collection-specimens museum-collections museum-metadata

7.62 score 24 stars 48 scripts 346 downloads 11 exports 107 dependencies

Last updated from:e83521c12f (on main). Checks:7 ERROR, 3 OK. Indexed: yes.

Target	Result	Time
linux-devel	ERROR	491
pkgdown docs	OK	490
source / vignettes	OK	562
linux-release	ERROR	514
macos-release	ERROR	299
macos-oldrel	ERROR	297
windows-devel	ERROR	173
windows-release	ERROR	168
windows-oldrel	ERROR	170
wasm-release	OK	174

Exports:GBIFLogin GBIFLoginManager getBIENpoints getGBIFpoints occCitation occCiteData occCiteMap occQuery prevGBIFdownload studyTaxonList taxonRectification

Dependencies:ape askpass backports base64enc bib2df bibtex BIEN bslib cachem class classInt cli codetools cpp11 crosstalk crul curl data.table DBI digest doParallel dplyr e1071 evaluate farver fastmap fontawesome foreach fs generics ggplot2 glue gridExtra gtable highr htmltools htmlwidgets httpcode httr humaniformat isoband iterators jquerylib jsonlite KernSmooth knitr labeling lattice lazyeval leaflet leaflet.providers lifecycle lubridate magrittr MASS memoise mime nlme oai openssl pillar pkgconfig plyr png proxy purrr R.methodsS3 R.oo R.utils R6 rappdirs raster RColorBrewer Rcpp RefManageR rgbif rlang rmarkdown RPostgreSQL s2 S7 sass scales sf sp stringi stringr sys terra tibble tidyr tidyselect timechange tinytex triebeard units urltools utf8 vctrs viridis viridisLite whisker withr wk xfun xml2 yaml

Simple search and citation of occurrences

Rendered froma_Simple.Rmdusingknitr::rmarkdown

Last update: 2024-10-28
Started: 2022-03-01

Advanced search and citation of occurrences

Advanced features | Loading data from previous GBIF searches | Performing a Multi-Species Search | occCite with a Phylogeny

Rendered fromb_Advanced.Rmdusingknitr::rmarkdown

Last update: 2022-03-15
Started: 2022-03-01

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
GBIFLogin Data Class	GBIFLogin GBIFLogin-class
GBIF Login Manager	GBIFLoginManager
Download occurrence points from BIEN	getBIENpoints
Download occurrences from GBIF	getGBIFpoints
Results of an occCite search for Protea cynaroides	myOccCiteObject
Occurrence Citations	occCitation
occCite Citation Class	occCiteCitation occCiteCitation-class
occCite Data Class	occCiteData occCiteData-class
Generating a map of downloaded points	occCiteMap
Query from Taxon List	occQuery
Plotting summary figures for occCite search results	plot.occCiteData
Download previously-prepared GBIF data sets	prevGBIFdownload
Print occCite citation object	print.occCiteCitation
Study Taxon List	studyTaxonList
Summary for occCite data objects	summary.occCiteData
Taxon Rectification	taxonRectification