data_preperation-class — table_to_species

prepares table of observational records into a sites x species matrix for use in ecomix.

table_to_species_data(
  observation_data,
  site_id = "site_id",
  species_id = "species_id",
  measurement_id = NULL
)

make_mixture_data(species_data, covariate_data)

Arguments

observation_data: data to be imported into R. A table of species occurrences and site records.
site_id: Name of column that contains site names /IDs.
species_id: Name of column that contains species information/ID.
measurement_id: Name of column that contains species observational data. eg, 'occurrence', 'abundance' or 'biomass'.
species_data: A character string providing the name of the column in data that contains the counts
covariate_data: A character string providing the name of the column in data that contains the binary occurence data

Value

A sites x species matrix to used as species_data in ecomix

models.

A list containing the following elements:

species_data: A matrix of occurrence, counts, biomass, or...
covariate_data: The design matrix for the global covariates

Author

Skipton Woolley