traits: Species Trait Data from Around the Web
Version 0.2.0

Species trait data from many different sources, including sequence data from 'NCBI', plant trait data from 'BETYdb', invasive species data from the Global Invasive Species Database and 'EOL', 'Traitbank' data from 'EOL', Coral traits data from http://coraltraits.org, 'nativity' status ('Flora Europaea' or 'ITIS'), and 'Birdlife' International.

Browse man pages Browse package API and functions Browse package files

AuthorScott Chamberlain [aut, cre], Zachary Foster [aut], Ignasi Bartomeus [aut], David LeBauer [aut], David Harris [aut]
Date of publication2016-03-18 15:58:47
MaintainerScott Chamberlain <myrmecocystus@gmail.com>
LicenseMIT + file LICENSE
Version0.2.0
URL https://github.com/ropensci/traits
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("traits")

Man pages

betydb: Search for traits from BETYdb
birdlife_habitat: Get bird habitat information from BirdLife/IUCN
birdlife_threats: Get bird threat information from BirdLife/IUCN
coral: Search for coral data on coraltraits.org
eol_invasive_: Search for presence of taxonomic names in EOL invasive...
fe_native: Check species status (native, exotic, ...) for one species...
g_invasive: Check invasive species status for a set of species from GISD...
is_native: Check if a species is native somewhere
leda: Access LEDA trait data
ncbi_byid: Retrieve gene sequences from NCBI by accession number.
ncbi_byname: Retrieve gene sequences from NCBI by taxon name and gene...
ncbi_searcher: Search for gene sequences available for taxa from NCBI.
plantatt: PLANTATT plant traits dataset
taxa_search: Search for traits by taxa names
traitbank: Search for traits from EOL's Traitbank.
traits-deprecated: Deprecated functions in traits
traits-package: traits - Species trait data from around the web

Functions

betydb Man page
betydb_GET Source code
betydb_GET2 Source code
betydb_auth Source code
betydb_citation Man page Source code
betydb_http Source code
betydb_search Man page Source code
betydb_site Man page Source code
betydb_specie Man page Source code
betydb_trait Man page Source code
betyurl Source code
birdlife_habitat Man page Source code
birdlife_threats Man page Source code
coral Man page
coral_GET Source code
coral_locations Man page Source code
coral_methodologies Man page Source code
coral_resources Man page Source code
coral_species Man page Source code
coral_taxa Man page Source code
coral_traits Man page Source code
coral_url Source code
coralbase Source code
df_null Source code
download_summary Source code
eol_invasive_ Man page Source code
failwith Source code
fe_native Man page Source code
g_invasive Man page Source code
get_blife Source code
get_parent Source code
get_tb Source code
is_native Man page Source code
leda Man page Source code
leda_base Source code
low_names Source code
lsw Source code
make_ids Source code
make_tables Source code
makeidurl Source code
makeurl Source code
mssg Source code
ncbi_byid Man page Source code
ncbi_byname Man page Source code
ncbi_searcher Man page Source code
ncbi_searcher_foo Source code
parse_ncbi Source code
parseres Source code
pick_file_name Source code
plantatt Man page
search_for_sequences Source code
selector Source code
strmatch Source code
taxa_search Man page Source code
taxa_search.character Source code
taxa_search.default Source code
taxonomy Source code
tburl Source code
traitbank Man page Source code
traitbank_GET Source code
traits Man page
traits-deprecated Man page
traits-package Man page
traits_capwords Source code
traitsc Source code
try_default Source code
trydefault Source code
tryfail Source code

Files

inst
inst/doc
inst/doc/betydb.html
inst/doc/traits_intro.html
inst/doc/traits_intro.Rmd
inst/doc/betydb.Rmd
inst/PLANTATT_19_Nov_08
inst/PLANTATT_19_Nov_08/plantatt.pdf
inst/PLANTATT_19_Nov_08/PLANTATT_19_Nov_08.xls
inst/PLANTATT_19_Nov_08/plantatt.csv
inst/vign
inst/vign/traits_intro.md
inst/vign/betydb.md
inst/vign/traits_intro.Rmd
inst/vign/betydb.Rmd
tests
tests/testthat.R
tests/testthat
tests/testthat/helper-traits.R
tests/testthat/test-betydb.R
NAMESPACE
data
data/plantatt.rda
R
R/traitbank.R
R/ncbi_byid.R
R/traits-package.r
R/betydb.R
R/birdlife.R
R/is_native.R
R/taxa_search.R
R/leda.R
R/ncbi_byname.R
R/eol_invasive.R
R/deprecated.R
R/g_invasive.R
R/ncbi_searcher.R
R/coral.R
R/fe_native.R
R/zzz.R
vignettes
vignettes/traits_intro.Rmd
vignettes/betydb.Rmd
README.md
MD5
build
build/vignette.rds
DESCRIPTION
man
man/coral.Rd
man/eol_invasive_.Rd
man/traitbank.Rd
man/taxa_search.Rd
man/leda.Rd
man/ncbi_searcher.Rd
man/betydb.Rd
man/plantatt.Rd
man/fe_native.Rd
man/ncbi_byid.Rd
man/g_invasive.Rd
man/traits-package.Rd
man/traits-deprecated.Rd
man/birdlife_habitat.Rd
man/ncbi_byname.Rd
man/is_native.Rd
man/birdlife_threats.Rd
LICENSE
traits documentation built on May 19, 2017, 6:11 p.m.