calc_iphc_ser_E_and_F: Calculations restricted to a user-defined area.

In pbs-assess/gfiphc: Data Extraction and Analysis for Groundfish Data from the IPHC Longline Survey in BC

Calculations restricted to a user-defined area.

Description

Calculate Series E and F from the IPHC data (restricted to a given area)

Usage

calc_iphc_ser_E_and_F(set_counts, only_standard = TRUE)

Arguments

set_counts	species-specific set-level counts from tidy_iphc_survey() or other, but with extra column in_area indicating if each station is in the area being considered or not. See vignette for example.
only_standard	only use the standard stations (default is TRUE).

Details

Calculate both Series for as many years as possible, including bootstrapped values, for the data restricted to a user-defined area and (default is) standard stations only.

The two series are:

Series E: first 20 hooks from each skate (like Series A but restricted to a given area)

Series F: all hooks from each skate (like Series B but restricted to a given area)

Value

list of class IPHC_ser_E_and_F containing two tibbles, one for each series (ser_E and ser_F). Each tibble has one row for each set in each year, restricted to only the sets within the defined area, with columns year, station, lat, lon, E_it (effective skate number), N_it (number of fish caught of the given species), C_it (catch rate of given species, as numbers per effective skate), E_it20, N_it20 and C_it20 are the same but considering the first 20 hooks of each skate only, usable (whether the set should be used, based on IPHC codes; note that some should not be used for geospatial analysis but are included here).

Examples

## Not run: 
TODO:
yelloweye <- tidy_iphc_survey(
 get_iphc_hooks("yelloweye rockfish"),
 get_iphc_skates_info(),
 get_iphc_sets_info()
)
calc_iphc_ser_all(yelloweye)

## End(Not run)

pbs-assess/gfiphc documentation built on July 4, 2023, 1:13 p.m.