spocc: Interface to Species Occurrence Data Sources
Version 0.7.0

A programmatic interface to many species occurrence data sources, including Global Biodiversity Information Facility ('GBIF'), 'USGSs' Biodiversity Information Serving Our Nation ('BISON'), 'iNaturalist', Berkeley 'Ecoinformatics' Engine, 'eBird', 'AntWeb', Integrated Digitized 'Biocollections' ('iDigBio'), 'VertNet', Ocean 'Biogeographic' Information System ('OBIS'), and Atlas of Living Australia ('ALA'). Includes functionality for retrieving species occurrence data, and combining those data.

AuthorScott Chamberlain [aut, cre], Karthik Ram [ctb], Ted Hart [ctb]
Date of publication2017-04-21 05:54:31 UTC
MaintainerScott Chamberlain <myrmecocystus@gmail.com>
LicenseMIT + file LICENSE
Version0.7.0
URL https://github.com/ropensci/spocc
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("spocc")

Getting started

Package overview
README.md

Popular man pages

as.vertnet: Coerce occurrence keys to vertnetkey/occkey objects
bbox2wkt: Convert a bounding box to a Well Known Text polygon, and a...
fixnames: Change names to be the same for each taxon.
occ: Search for species occurrence data across many data sources.
occ_options: Look up options for parameters passed to each source
spocc_duplicates: A note about duplicate occurrence records
spocc_objects: spocc objects and their print, plot, and summary methods
See all...

All man pages Function index File listing

Man pages

as.ala: Coerce occurrence keys to ALA id objects
as.antweb: Coerce occurrence keys to antwebkey/occkey objects
as.bison: Coerce occurrence keys to bisonkey/occkey objects
as.ecoengine: Coerce occurrence keys to ecoenginekey/occkey objects
as.gbif: Coerce occurrence keys to gbifkey/occkey objects
as.idigbio: Coerce occurrence keys to idigbio objects
as.inat: Coerce occurrence keys to iNaturalist id objects
as.obis: Coerce occurrence keys to obis id objects
as.vertnet: Coerce occurrence keys to vertnetkey/occkey objects
bbox2wkt: Convert a bounding box to a Well Known Text polygon, and a...
fixnames: Change names to be the same for each taxon.
inspect: Get more data on individual occurrences.
occ: Search for species occurrence data across many data sources.
occ2df: Combine results from occ calls to a single data.frame
occ_coverage: Automatically generate coverages for a spocc search
occ_names: Search for species names across many data sources.
occ_names_options: Look up options for parameters passed to each source for...
occ_options: Look up options for parameters passed to each source
spocc_capwords: Capitalize the first letter of a character string.
spocc_duplicates: A note about duplicate occurrence records
spocc_objects: spocc objects and their print, plot, and summary methods
spocc-package: Interface to many species occurrence data sources
wkt_vis: Visualize well-known text area's on a map.

Functions

add_latlong Source code
add_latlong_if_missing Source code
ala_GET Source code
ala_base Source code
ala_occ_id Source code
ala_search Source code
allocate_column Source code
as.ala Man page Source code
as.ala.alakey Source code
as.ala.character Source code
as.ala.data.frame Source code
as.ala.list Source code
as.ala.occdat Source code
as.ala.occkey Source code
as.antweb Man page Source code
as.antweb.antwebkey Source code
as.antweb.character Source code
as.antweb.data.frame Source code
as.antweb.list Source code
as.antweb.occdat Source code
as.antweb.occkey Source code
as.bison Man page Source code
as.bison.bisonkey Source code
as.bison.character Source code
as.bison.data.frame Source code
as.bison.list Source code
as.bison.numeric Source code
as.bison.occdat Source code
as.bison.occkey Source code
as.ecoengine Man page Source code
as.ecoengine.character Source code
as.ecoengine.data.frame Source code
as.ecoengine.ecoenginekey Source code
as.ecoengine.list Source code
as.ecoengine.occdat Source code
as.ecoengine.occkey Source code
as.gbif Man page Source code
as.gbif.character Source code
as.gbif.data.frame Source code
as.gbif.gbifkey Source code
as.gbif.list Source code
as.gbif.numeric Source code
as.gbif.occdat Source code
as.gbif.occkey Source code
as.idigbio Man page Source code
as.idigbio.character Source code
as.idigbio.data.frame Source code
as.idigbio.idigbiokey Source code
as.idigbio.list Source code
as.idigbio.occdat Source code
as.idigbio.occkey Source code
as.inat Man page Source code
as.inat.character Source code
as.inat.data.frame Source code
as.inat.inatkey Source code
as.inat.list Source code
as.inat.numeric Source code
as.inat.occdat Source code
as.inat.occkey Source code
as.obis Man page Source code
as.obis.data.frame Source code
as.obis.list Source code
as.obis.numeric Source code
as.obis.obiskey Source code
as.obis.occdat Source code
as.obis.occkey Source code
as.vertnet Man page Source code
as.vertnet.character Source code
as.vertnet.data.frame Source code
as.vertnet.list Source code
as.vertnet.occdat Source code
as.vertnet.occkey Source code
as.vertnet.vertnetkey Source code
aw_data2 Source code
bbox2wkt Man page Source code
catif Source code
check_for_package Source code
check_integer Source code
ee_observations2 Source code
eee_base_url Source code
eee_paginator Source code
eee_search Source code
emptylist Source code
fdec Source code
fixnames Man page Source code
foo_ala Source code
foo_antweb Source code
foo_bison Source code
foo_ebird Source code
foo_ecoengine Source code
foo_gbif Source code
foo_idigbio Source code
foo_inat Source code
foo_obis Source code
foo_vertnet Source code
foolist Source code
found_null Source code
founded Source code
founded_mssg Source code
get_antweb Source code
get_ecoengine Source code
getnameslist Source code
gettype Source code
handle_sp Source code
inat_base_url Source code
inspect Man page Source code
inspect.data.frame Man page Source code
inspect.occdat Man page Source code
inspect.occkey Man page Source code
is_logical Source code
is_null Source code
is_numeric Source code
limit_alias Source code
loopfun Source code
make_ala Source code
make_ala_df Source code
make_antweb Source code
make_antweb_df Source code
make_assignment_call Source code
make_bison Source code
make_bison_df Source code
make_df Source code
make_ecoengine Source code
make_ecoengine_df Source code
make_gbif Source code
make_gbif_df Source code
make_idigbio Source code
make_idigbio_df Source code
make_inat Source code
make_inat_df Source code
make_names Source code
make_obis Source code
make_obis_df Source code
make_vertnet Source code
make_vertnet_df Source code
mapvalues Source code
move_cols Source code
names_bison Source code
names_ecoengine Source code
names_gbif Source code
nn Source code
obis_base Source code
obis_occ_id Source code
obis_search Source code
occ Man page Source code
occ2df Man page Source code
occ2df.occdat Source code
occ2df.occdatind Source code
occ_coverage Man page Source code
occ_names Man page Source code
occ_names_options Man page Source code
occ_options Man page Source code
occinddf Source code
output_template Source code
pastemax Source code
pluck Source code
pluck_fill Source code
print.occdat Man page Source code
print.occdatind Man page Source code
print.occnames Man page Source code
quickdf Source code
rbind_fill Source code
rbindl Source code
rd_tags Source code
rename Source code
revalue Source code
sc Source code
spocc Man page
spocc-package Man page
spocc_capwords Man page Source code
spocc_duplicates Man page
spocc_get_inat_obs_id Source code
spocc_inat_handle Source code
spocc_inat_obs Source code
spocc_objects Man page
spocc_wrap Source code
stand_dates Source code
stand_latlon Source code
strextract Source code
strtrim Source code
summary.occdat Man page Source code
summary.occdatind Man page Source code
time_null Source code
wkt2bbox Man page Source code
wkt_vis Man page Source code

Files

inst
inst/doc
inst/doc/spocc_vignette.html
inst/doc/spocc_vignette.Rmd
tests
tests/testthat.R
tests/testthat
tests/testthat/test-occ2df.R
tests/testthat/test-paging.R
tests/testthat/test-options.R
tests/testthat/test-taxize-integration.R
tests/testthat/test-has_coords.R
tests/testthat/test-idbasedsearch.R
tests/testthat/test-geometry.R
tests/testthat/test-occ.R
tests/testthat/test-common_params.R
tests/testthat/test-wkt_vis.R
NAMESPACE
NEWS.md
R
R/ala_helpers.R
R/inspect.R
R/fixnames.r
R/spocc_duplicates.R
R/occ_names.R
R/spocc-package.R
R/as.ecoengine.R
R/occ_options.r
R/as.ala.R
R/wkt_bbox.R
R/as.gbif.R
R/occ_names_options.R
R/as.antweb.R
R/occ2df.R
R/ecoengine_helpers.R
R/plugin_helpers.R
R/as.obis.R
R/obis_helpers.R
R/occ_coverage.R
R/zzz.r
R/occ.r
R/as.vertnet.R
R/as.bison.R
R/wkt_vis.r
R/rename.R
R/as.idigbio.R
R/inat.R
R/methods.r
R/plugins.r
R/handle_sp.R
R/as.inat.R
R/antweb_helpers.R
R/rbindfill.R
vignettes
vignettes/img
vignettes/img/ggplot2.png
vignettes/img/shiny.png
vignettes/img/leaflet.png
vignettes/img/baseplots.png
vignettes/img/gist.png
vignettes/spocc_vignette.Rmd
README.md
MD5
build
build/vignette.rds
DESCRIPTION
man
man/occ_coverage.Rd
man/bbox2wkt.Rd
man/spocc_duplicates.Rd
man/occ.Rd
man/spocc-package.Rd
man/fixnames.Rd
man/as.gbif.Rd
man/as.idigbio.Rd
man/as.bison.Rd
man/occ2df.Rd
man/as.ala.Rd
man/as.obis.Rd
man/occ_names_options.Rd
man/spocc_capwords.Rd
man/as.antweb.Rd
man/wkt_vis.Rd
man/as.vertnet.Rd
man/as.inat.Rd
man/as.ecoengine.Rd
man/spocc_objects.Rd
man/occ_options.Rd
man/inspect.Rd
man/occ_names.Rd
LICENSE
spocc documentation built on May 19, 2017, 11:25 p.m.

Questions? Problems? Suggestions? Tweet to @rdrrHQ or email at ian@mutexlabs.com.

Please suggest features or report bugs in the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.