format_iphc_longest: Format the longest IPHC time series index to agree with other...

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

Format the longest IPHC time series index to agree with other surveys

Description

Format the longest IPHC time series index to agree with other surveys so that plot_survey_index() in gfplot (and may get moved to here) works automatically. So the mean catch rate gets renames as ‘biomass’ even though it's numbers per effective skate.

Usage

format_iphc_longest(iphc_set_counts_sp)

Arguments

iphc_set_counts_sp

Output from calc_iphc_full_res() (only actually need the ser_longest component and test_AB).

Value

Renamed ser_longest, with some required columns calculated.

Examples

## Not run: 
# If already loaded data via gfsynopsis then
dat_iphc <- readRDS("../gfsynopsis/report/data-cache/iphc/yelloweye-rockfish.rds")
set_counts <- dat_iphc$set_counts
# Else to load from scratch:
# set_counts <- get_all_iphc_set_counts("yelloweye rockfish")
iphc_set_counts_sp <- calc_iphc_full_res(set_counts)
format_iphc_longest(iphc_set_counts_sp)
# Has no data for early years or 2013:
sp = "china rockfish"
# If already loaded data via gfsynopsis then
dat_iphc <- readRDS("../gfsynopsis/report/data-cache/iphc/china-rockfish.rds")
set_counts <- dat_iphc$set_counts
# Else to load from scratch:
# set_counts <- get_all_iphc_set_counts(sp)
iphc_set_counts_sp <- calc_iphc_full_res(set_counts)
format_iphc_longest(iphc_set_counts_sp)

## End(Not run)

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