This function does basic quality control of the Portal rodent
data. It is mainly called from summarize_rodent_data, with
several arguments passed along.
The specific steps it does are, in order: (1) add in missing weight data (2) remove records with "bad" period codes or plot numbers (3) remove records for unidentified species (4) exclude non-granivores (5) exclude incomplete trapping sessions (6) exclude the plots that aren't long-term treatments
Usage
clean_rodent_data(
rodent_data,
species_table,
fillweight = FALSE,
type = "Rodents",
unknowns = FALSE
)Arguments
- rodent_data
the raw rodent data table
- species_table
the species table
- fillweight
specify whether to fill in unknown weights with other records from that individual or species, where possible
- type
specify subset of species; either all "Rodents" or only "Granivores"
- unknowns
either removes all individuals not identified to species (unknowns = FALSE) or sums them in an additional column (unknowns = TRUE)