Suggest datasets in GBIF.

Suggest datasets in GBIF.

Usage

dataset_suggest(
  query = NULL,
  country = NULL,
  type = NULL,
  subtype = NULL,
  keyword = NULL,
  publishingOrg = NULL,
  hostingOrg = NULL,
  publishingCountry = NULL,
  decade = NULL,
  continent = NULL,
  limit = 100,
  start = NULL,
  pretty = FALSE,
  description = FALSE,
  curlopts = list()
)

Arguments

query

Query term(s) for full text search. The value for this parameter can be a simple word or a phrase. Wildcards can be added to the simple word parameters only, e.g. q=*puma*

country

NOT YET IMPLEMENTED. Filters by country as given in isocodes$gbif_name, e.g. country="CANADA"

type

Type of dataset, options include occurrene, metadata, checklist, sampling_event (http://gbif.github.io/gbif-api/apidocs/org/gbif/api/vocabulary/DatasetType.html)

subtype

NOT YET IMPLEMENTED. Will allow filtering of datasets by their dataset subtypes, DC or EML.

keyword

Keyword to search by. Datasets can be tagged by keywords, which you can search on. The search is done on the merged collection of tags, the dataset keywordCollections and temporalCoverages.

publishingOrg

Publishing organization. A uuid string. See organizations

hostingOrg

Hosting organization. A uuid string. See organizations

publishingCountry

Publishing country. See options at isocodes$gbif_name

decade

Decade, e.g., 1980. Filters datasets by their temporal coverage broken down to decades. Decades are given as a full year, e.g. 1880, 1960, 2000, etc, and will return datasets wholly contained in the decade as well as those that cover the entire decade or more. Facet by decade to get the break down, e.g. /search?facet=DECADE&facet_only=true (see example below)

continent

Not yet implemented, but will eventually allow filtering datasets by their continent(s) as given in our Continent enum.

limit

Number of records to return. Default: 100. Maximum: 1000.

start

Record number to start at. Default: 0. Use in combination with limit to page through results.

pretty

Print informative metadata using cat. Not easy to manipulate output though.

description

Return descriptions only (TRUE) or all data (FALSE, default)

curlopts

list of named curl options passed on to HttpClient. see curl::curl_options for curl options

Value

A data.frame, list, or message printed to console (using pretty=TRUE).

Repeat parmeter inputs

Some parameters can tak emany inputs, and treated as 'OR' (e.g., a or b or c). The following take many inputs:

• type

• keyword

• publishingOrg

• hostingOrg

• publishingCountry

• decade

References

https://www.gbif.org/developer/registry#datasetSearch

Examples

if (FALSE) {
# Suggest datasets of type "OCCURRENCE".
# dataset_suggest(query="Amazon", type="OCCURRENCE")

# Suggest datasets tagged with keyword "france".
# dataset_suggest(keyword="france")

# Fulltext search for all datasets having the word "amsterdam" somewhere in
# its metadata (title, description, etc).
# dataset_suggest(query="amsterdam")

# Limited search
# dataset_suggest(type="OCCURRENCE", limit=2)
# dataset_suggest(type="OCCURRENCE", limit=2, start=10)

# Return just descriptions
# dataset_suggest(type="OCCURRENCE", limit = 5, description=TRUE)

# Return metadata in a more human readable way (hard to manipulate though)
# dataset_suggest(type="OCCURRENCE", limit = 5, pretty=TRUE)

# Search by country code. Lookup isocodes first, and use US for United States
isocodes[agrep("UNITED", isocodes$gbif_name),]
# dataset_suggest(country="US", limit = 25)

# Search by decade
# dataset_suggest(decade=1980, limit = 30)

# Some parameters accept many inputs, treated as OR
# dataset_suggest(type = c("metadata", "checklist"))
# dataset_suggest(keyword = c("fern", "algae"))
# dataset_suggest(publishingOrg = c("e2e717bf-551a-4917-bdc9-4fa0f342c530",
#   "90fd6680-349f-11d8-aa2d-b8a03c50a862"))
# dataset_suggest(hostingOrg = c("c5f7ef70-e233-11d9-a4d6-b8a03c50a862",
#   "c5e4331-7f2f-4a8d-aa56-81ece7014fc8"))
# dataset_suggest(publishingCountry = c("DE", "NZ"))
# dataset_suggest(decade = c(1910, 1930))

# curl options
# dataset_suggest(type="OCCURRENCE", limit = 2, curlopts = list(verbose=TRUE))
}