Compute site impact indicator

Compute site impact indicator

Usage

site_impact(
  cube,
  impact_data = NULL,
  method = NULL,
  trans = 1,
  col_category = NULL,
  col_species = NULL,
  col_mechanism = NULL
)

Arguments

cube

The data cube of class sim_cube or processed_cube from b3gbi::process_cube()

impact_data

The dataframe of species impact which contains columns of impact_category, scientific_name and impact_mechanism

method

The method of computing the indicator. The method used in the aggregation of within and across species in a site. The method can be precautionary, precautionary cumulative, mean, mean cumulative or cumulative.

trans

Numeric. The method of transformation to convert the EICAT categories to numerical values. 1 converts ("MC", "MN", "MO", "MR", "MV") to (0,1,2,3,4) 2 converts ("MC", "MN", "MO", "MR", "MV") to (1,2,3,4,5) and 3 converts ("MC", "MN", "MO", "MR", "MV") to (1,10,100,1000,10000)

col_category

The name of the column containing the impact categories. The first two letters each categories must be an EICAT short names (e.g "MC - Minimal concern")

col_species

The name of the column containing species names

col_mechanism

The name of the column containing mechanisms of impact

Value

The dataframe of impact indicator per sites (class site_impact)

See also

Other Indicator function: impact_indicator(), species_impact()

Examples

# define cube for taxa
acacia_cube <- taxa_cube(
  taxa = taxa_Acacia,
  region = southAfrica_sf,
  res = 0.25,
  first_year = 2010
)

siteImpact <- site_impact(
  cube = acacia_cube,
  impact_data = eicat_acacia,
  method = "precautionary cumulative",
  trans = 1
)