load_observations: Load observations from GBIF or ATLAS databases

In ReseauBiodiversiteQuebec/sdm-pipeline: Package R intégrant les fonctions et données pour produire des Species Distribution Model (SDM) dans le contexte de la plateforme Biodiversité Québec.

Load observations from GBIF or ATLAS databases

Description

Load observations from GBIF or ATLAS databases

Usage

load_observations(
  species,
  data_source,
  year_start,
  year_end = NULL,
  extent_wkt = NULL,
  extent_shp = NULL,
  proj_shp = NULL,
  xmin = NA,
  ymin = NA,
  xmax = NA,
  ymax = NA,
  bbox = NULL,
  limit = 1000
)

Arguments

species,	a character, scientific name of the species.
data_source,	an integer, "gbif" or "atlas", source to use
year_start,	an integer, starting year of the period
year_end,	an integer, end year of the period
extent_wkt,	a string in WKT format, used to subset the obs spatially (only used with gbif for now)
extent_shp,	sf polygone, used to subset the obs spatially (only used with gbif for now)
proj_shp,	extent_shp projection system, if not included in extent_shp.
xmin,	a float, xmin coords of extent box (MUST BE IN WGS84), used to subset the obs spatially (only used with gbif for now)
ymin,	a float, ymin coords of extent box (MUST BE IN WGS84), used to subset the obs spatially (only used with gbif for now)#' @param aggregation, a character, aggregation method as string, defining how to deal with pixels containing data from multiple images, can be "min", "max", "mean", "median", or "first"
xmax,	a float, xmax coords of extent box (MUST BE IN WGS84), used to subset the obs spatially (only used with gbif for now)#' @return a raster stack of variables not intercorrelated
ymax,	a float, ymax coords of extent box (MUST BE IN WGS84), used to subset the obs spatially (only used with gbif for now)
bbox,	a vector of float, format: c(xmin, ymin, xmax, ymax) (MUST BE IN WGS84), used to subset the obs spatially (only used with gbif for now)
limit,	an integer, limit param for rgbif::occ_data function

Value

a data.frame

ReseauBiodiversiteQuebec/sdm-pipeline documentation built on June 23, 2022, 9:10 p.m.