check_spatial_outliers: Check Spatial Outliers

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

Check Spatial Outliers

Description

This function takes a data frame of all taxa records, flags records as spatial outliers (T/F for each record in the df), and saves images of the checks for each. Manual cleaning of spatial outliers is very tedious, but automated cleaning makes mistakes, so checking is handy It uses the CoordinateCleaner package https://cran.r-project.org/web/packages/CoordinateCleaner/index.html. It assumes that the input dfs are those returned by the coord_clean_records function

Usage

check_spatial_outliers(
  occ_df,
  multi_source,
  site_flag,
  occ_flag,
  site_records,
  land_shp,
  clean_path,
  plot_points,
  record_limit,
  spatial_mult,
  prj
)

Arguments

multi_source	Numeric - use multiple sources?
land_shp	R object. Shapefile of the worlds land (e.g. https://www.naturalearthdata.com/downloads/10m-physical-vectors/10m-land/)
clean_path	Character string - The file path used for saving the checks
record_limit	Numeric - limit for records
spatial_mult	Numeric. The multiplier of the interquartile range (method == 'quantile', see ?cc_outl)
all_df	Data.frame. DF of all taxa records returned by the coord_clean_records function
site_df	Data.frame of site records (only used if you have site data, e.g. I-naturalist)

HMB3/nenswniche documentation built on Jan. 31, 2023, 11:46 p.m.