ConR (version 1.3.0)

locations.comp: Number of locations

Description

Estimate the number of locations for multiple taxa

Usage

locations.comp(
  XY,
  method = "fixed_grid",
  nbe_rep = 0,
  protec.areas = NULL,
  Cell_size_locations = 10,
  method_protected_area = "no_more_than_one",
  ID_shape_PA = "WDPA_PID",
  Rel_cell_size = 0.05,
  parallel = FALSE,
  NbeCores = 2,
  show_progress = TRUE
)

Arguments

XY

data.frame, see details

method

string, indicating the method used for estimating the number of locations. Either "fixed_grid" or "sliding scale". See details. By default, it is "fixed_grid"

nbe_rep

numeric , indicate the number of raster with random starting position for estimating the number of locations By default, it is 0 but some minimal translation of the raster are still done

protec.areas

SpatialPolygonsDataFrame, shapefile with protected areas. If provided, this will be taken into account for calculating number of location (see Details and method_protected_area). By default, no shapefile is provided

Cell_size_locations

numeric, value indicating the grid size in kilometers used for estimating the number of location. By default, equal to 10

method_protected_area

string, by default is "no_more_than_one"", which means occurrences within protected areas (if provided) will not be taken into account for estimating the number of locations following the grid system, see Details. By default, it is "no_more_than_one"

ID_shape_PA

string, indicating the field name of protec.areas with ID of the SpatialPolygonsDataFrame of protected areas

Rel_cell_size

numeric, if method_locations="sliding scale", Cell_size_locations is ignored and the resolution is given by the maximum distance separating two occurrences multiplied by Rel_cell_size. By default, it is 0.05

parallel

logical, whether running in parallel. By default, it is FALSE

NbeCores

string integer, register the number of cores for parallel execution. By default, it is 2

show_progress

logical, whether a bar showing progress in computation should be shown. By default, it is TRUE

Value

A list with one list for each species containing [[1]]SpatialPolygonDataframe and [[2]]vector of the number of location.

Details

Input as a dataframe should have the following structure:

It is mandatory to respect field positions, but field names do not matter

[,1]	ddlat	numeric, latitude (in decimal degrees)
[,2]	ddlon	numeric, longitude (in decimal degrees)
[,3]	tax	character or factor, taxa names

References

Gaston & Fuller 2009 The sizes of species'geographic ranges, Journal of Applied Ecology, 49 1-9

Examples

# NOT RUN {
data(dataset.ex)
# }
# NOT RUN {
locations <- locations.comp(dataset.ex)
# }
# NOT RUN {
# This would estimate the number of locations for all taxa by overlaying 
# randomly a grid 100 times. For each taxa, the minimum value is kept
# }
# NOT RUN {
locations <- locations.comp(dataset.ex, nbe_rep = 100)
# }
# NOT RUN {
# }