Repo to accompany

Givers and takers: origin and recipient regions of biological invasion costs

Emma J. Hudgins*, Phillip J. Haubrock*, Ross N. Cuthbert*, Alok Bang, Elizabeta Briski, Christophe Diagne, Syrmalenia Kotronaki, Melina Kourantidou, Desika Moodley, Dat Nguyen, Nigel Taylor, Anna J. Turbelin,& Franck Courchamp

code written by Dat Nguyen and Emma J Hudgins

SCRIPTS

get_range_EH.R

• provides the functions getRangeGISD, getRangeCABI and trim to retrieve dataset

native_ranges_countriesnew.R

• using all invacost species in invacost package, attempts to download the ranges
• also checks whether it has an accepted name or synonyms and attempts the process on those as well

see our extended InvaCost region-to-country designation:

• 6 unique cases were manually mapped:

  kosovo = "Europe"
  tropical america = "Central America"
  pacific northwest = "Asia"
  north america = "North America"
  atlantic coast (north america) = "North America"
  indian ocean - western = "Africa"

data_cleaning.R

• joins double-checked origin list (givers_takers_doublecheck.csv) to invacost data

data_analysis.R

• performs analyses of the manuscript.

FILES

Datasheet_201911240709.csv

• Full list of species with datasheets from CABI
• Used in get_native.R to supplement the downloading process, to reduce error as getRangeCABI would have to Google the species without a match

region-country-designation-DN.csv

• reference for continent designation by country and iso3c code

givers_takers_doublecheck.csv

• result of manual double checking of web scraped origin data

OUTPUT

tax_accepted.rds and tax_synonyms.rds

• output from native_ranges_countriesnew.R
• list of accepted names and synonyms for species that were originally missing from first pass using invacost species names

species-list.csv

• output from native_ranges_countriesnew.R
• the list of species with ranges that we found
• provides the name, source and any syn onyms used to get ranges

speciesRanges.rds

• output from get_native.R
• R named list of species providing native ranges from CABI and GISD

origin_invacost_nonexpanded.csv

• output from data_cleaning.R, join of double-checked origin data with invacost

origin_invacost_expanded.csv

• output from performing expandYearlyCosts() on the nonexpanded data