get_biological_data: Calculate expanded discard composition
In nwfsc-assess/nwfscDiscardBootstrap: Northwest Fisheries Science Center

get_biological_data

R Documentation

Calculate expanded discard composition

Description

Calculate expanded discard composition

Usage

get_biological_data(
  dir = NULL,
  data,
  catch_data,
  species_name,
  len_bins,
  age_bins,
  gear_groups,
  gear_names,
  fleet_colname,
  fleet_groups,
  fleet_names,
  expand = TRUE
)

Arguments

`dir`	Directory location to save files.
`data`	A data frame of WCGOP biological data that includes all species.
`catch_data`	A data frame of WCGOP catch data that includes all species. This data frame will be used to check confidentiality.
`species_name`	Species that you want composition data for.
`len_bins`	Length composition bins (example: seq(20, 90, 2)).
`age_bins`	Age composition bins (example: 1:50).
`gear_groups`	List of gear types to group together (example: list(c("Bottom Trawl", "Midwater Trawl"), c("Hook & Line", "Pot", "Shrimp Trawl"))).
`gear_names`	Vector of gear group names (example: c("trawl", "fixed gear")).
`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")).
`expand`	Logical statement on whether to expand the compositions samples. Default is TRUE. If set to FALSE, then raw samples will be returned that are filtered for confidentiality.