combine_ages: Combine ageclasses to juvenile and adult stanza according to...

In alketh/atlantistools: Process and Visualise Output from Atlantis Models

Description

Combine ageclasses to juvenile and adult stanza according to age at maturity.

Usage

combine_ages(data, grp_col, agemat, value_col = "atoutput")

Arguments

data	Dataframe with ageclass specific information.
grp_col	Character string giving the name of the group column in data. E.g. 'species', 'pred', 'prey' etc.
agemat	First mature age class for age structured groups. This dataframe should be generated with prm_to_df using "age_mat" as parameter.
value_col	Character string giving the name of the column to sum. Default is "atoutput".

Value

Dataframe with ageclasses combined to stanzas.

Examples

d <- system.file("extdata", "setas-model-new-trunk", package = "atlantistools")
prm_biol <- file.path(d, "VMPA_setas_biol_fishing_Trunk.prm")
fgs <- file.path(d, "SETasGroupsDem_NoCep.csv")

agemat <- prm_to_df(prm_biol = prm_biol, fgs = fgs,
                    group = get_age_acronyms(fgs = fgs),
                    parameter = "age_mat")

combine_ages(ref_nums, grp_col = "species", agemat = agemat)

alketh/atlantistools documentation built on Oct. 30, 2021, 5:46 a.m.