calc_enviro_niches: Calculate niches
In HMB3/nenswniche: Rapidly estimate species ranges and intersect with other layers

calc_enviro_niches

R Documentation

Calculate niches

Description

Takes a data frame of all species records, estimates geographic and environmental ranges for each, and creates a table of each. It uses the AOO.computing function in the ConR package https://cran.r-project.org/web/packages/ConR/index.html It assumes that the input df is that returned by the check_spatial_outliers function

Usage

calc_enviro_niches(
  coord_df,
  prj,
  country_shp,
  world_shp,
  kop_shp,
  taxa_list,
  env_vars,
  cell_size,
  save_run,
  data_path,
  save_data
)

Arguments

`coord_df`	Data.frame. DF of all species records returned by the coord_clean_records function
`world_shp`	.Rds object. Shapefile of the worlds land (e.g. https://www.naturalearthdata.com/downloads/10m-physical-vectors/10m-land/)
`kop_shp`	.Rds object. Shapefile of the worlds koppen zones (e.g. https://www.climond.org/Koppen.aspx)
`taxa_list`	Character string - List of taxa analysed, used to cut the dataframe down
`env_vars`	Character string - List of environmental variables analysed
`cell_size`	Numeric. Value indicating the grid size in decimal degrees used for estimating Area of Occupancy (see ?AOO.computing)
`save_run`	Character string - run name to append to the data frame, useful for multiple runs.
`data_path`	Character string - The file path used for saving the data frame
`save_data`	Logical - do you want to save the data frame?
`aus_df`	Data.frame of site records (only used if you have site data, e.g. I-naturalist)