Make standardised collection methods lookup

Make standardised collection methods lookup

make_methods_lu(
  df,
  methods_key,
  method_col = "method",
  taxonomy,
  taxa_col = "original_name",
  unassigned = "observed"
)

Arguments

df

Dataframe with methods variants.

methods_key

Dataframe with 'method_gp' column for the standardised methods, 'terms' column for the search terms used to define each standard method_gp, and 'rank' column with integers specifying which method_gp to use over others if there is overlap in search terms (where higher numbers indicate those to use over lower numbers).

method_col

Character. Name of column in df with method.

taxonomy

List resulting from call to make_taxonomy().

taxa_col

Character. Name of column in df with taxa. Used for matching to taxonomy and generating 'tax_gp' column in output, indicating which taxonomic groups each method has been recorded for.

Value

Dataframe with original 'method' column and standardised 'method_gp' column based on the supplied methods_key. Also, 'tax_gp' column indicating the taxonomic group for which the methods were recorded, and 'method_n' column indicating the number of occurrences for the original 'method' in the 'tax_gp'.