originr
Species Origin Data
Data sources:
- Encyclopedia of Life http://eol.org
- Flora Europaea http://rbg-web2.rbge.org.uk/FE/fe.html
- Global Invasive Species Database http://www.iucngisd.org/gisd
- Native Species Resolver http://bien.nceas.ucsb.edu/bien/tools/nsr/nsr-ws/
- Integrated Taxonomic Information Service http://www.itis.gov/
- Global Register of Introduced and Invasive Species http://www.griis.org/
Install
Stable CRAN version
install.packages("originr")
Development version
remotes::install_github("ropensci/originr")
library("originr")
EOL invasive species datasets
Datasets included:
gisd100
- 100 of the World's Worst Invasive Alien Species
(Global Invasive Species Database) http://eol.org/collections/54500
gisd
- Global Invasive Species Database 2013 http://eol.org/collections/54983isc
- Centre for Agriculture and Biosciences International Invasive Species
Compendium (ISC) http://eol.org/collections/55180
daisie
- Delivering Alien Invasive Species Inventories for Europe (DAISIE) Species
List http://eol.org/collections/55179
i3n
- IABIN Invasives Information Network (I3N) Species
http://eol.org/collections/55176
mineps
- Marine Invaders of the NE Pacific Species http://eol.org/collections/55331
An example using mineps
eol(name='Ciona intestinalis', dataset='mineps')
#> searched_name name eol_object_id db
#> 1 Ciona intestinalis Ciona intestinalis NaN mineps
Native Species Resolver
nsr("Pinus ponderosa", "United States")
#> family genus species country state_province county_parish
#> 1 Pinaceae Pinus Pinus ponderosa United States
#> native_status native_status_reason native_status_sources isIntroduced
#> 1 N Native to region 0
#> isCultivated
#> 1 0
Global Invasive Species Database
sp <- c("Carpobrotus edulis", "Rosmarinus officinalis")
gisd(sp)
#> $`Carpobrotus edulis`
#> $`Carpobrotus edulis`$species
#> [1] "Carpobrotus edulis"
#>
#> $`Carpobrotus edulis`$alien_range
#> [1] "albania" "argentina" "australia" "bermuda"
#> [5] "chile" "croatia" "france" "french polynesia"
#> [9] "germany" "gibraltar" "greece" "guernsey"
#> [13] "ireland" "italy" "malta" "mexico"
#> [17] "new zealand" "pitcairn" "portugal" "saint helena"
#> [21] "spain" "tunisia" "united kingdom" "united states"
#>
#> $`Carpobrotus edulis`$native_range
#> character(0)
#>
#>
#> $`Rosmarinus officinalis`
#> $`Rosmarinus officinalis`$species
#> [1] "Rosmarinus officinalis"
#>
#> $`Rosmarinus officinalis`$status
#> [1] "Not in GISD"
Flora Europaea
flora_europaea("Lavandula stoechas")
#> $native
#> [1] "Islas_Baleares" "Corse" "Kriti" "France"
#> [5] "Greece" "Spain" "Italy" "Portugal"
#> [9] "Sardegna" "Sicilia" "Turkey"
#>
#> $exotic
#> [1] NA
#>
#> $status_doubtful
#> [1] NA
#>
#> $occurrence_doubtful
#> [1] NA
#>
#> $extinct
#> [1] NA
Meta
- Please report any issues or bugs.
- License: MIT
- Get citation information for
originr
in R doingcitation(package = 'originr')
- Please note that this project is released with a Contributor Code of Conduct. By participating in this project you agree to abide by its terms.