Bootstrap uncertainty and summarize WCGOP discard data

Bootstrap uncertainty and summarize WCGOP discard data

do_discard_bootstrap(
  dir = NULL,
  data,
  species,
  boot_number,
  gear_groups,
  gear_names,
  fleet_colname,
  fleet_groups,
  fleet_names,
  seed_number = 1,
  rm_em_data = FALSE
)

Arguments

dir

Directory location to save files.

data

A data frame of WCGOP catch data

species

species name that should match the name in the ob data file, can be single species or multiple names (e.g. c("Gopher Rockfish", "Black and Yellow Rockfish"))

boot_number

The number of bootstraps to conduct

gear_groups

List of gear types to group together (example: list(c("Bottom Trawl", "Midwater Trawl"), c("Hook & Line", "Pot", "Shrimp Trawl"))).

fleet_colname

Column to use to determine areas for fleets (example: "r_state.x")

fleet_groups

List of fleet groups to use (example: list(c("WA", "OR", "CA"))).

fleet_names

Vector of fleet names (example: c("coastwide")).

seed_number

The seed number.

rm_em_data

Logical indicating whether EM records should be removed from the observer catch records (OBCatch) data file.

gear_name

Vector of gear group names (example: c("trawl", "fixed gear")).

Author

Chantel Wetzel, Allan Hicks, and Jason Jannot