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AquaticLifeHistory allows users to undertake fisheries life history analyses using contemporary approaches as simple R functions. These analyses currently include length-at-age modelling using a multi-model approach, estimating age-at-maturity and length-at-maturity. The main package functions are:
Estimate_Growth() performs length-at-age analyses using a von Bertalanffy growth model, Gompertz model and/or Logistic model.Estimate_Age_Maturity() Estimates age-at-maturity using either binomial maturity or proportion mature data and age.Estimate_Len_Maturity() Estimates age-at-maturity using either binomial maturity or proportion mature data and length.You can install the released version of AquaticLifeHistory from Github with:
library(AquaticLifeHistory)
# load example data set
data("growth_data")
# Run function with three default model candidates.
# Model parameters, AIC values are returned and a plot with bootstrapped CI's is printed to examine fits.
Estimate_Growth(growth_data)
#> $VonB
#> Parameter SE
#> Linf 2439.5652138 50.416331766
#> k 0.1253499 0.006938586
#> L0 659.2971929 14.318722887
#> RSE 97.9461196 NA
#>
#> $Logistic
#> Parameter SE
#> Linf 2163.8640309 26.46867817
#> g 0.2894532 0.01039625
#> L0 727.0885234 13.58771346
#> RSE 110.3850532 NA
#>
#> $Gompertz
#> Parameter SE
#> Linf 2250.136998 32.621706305
#> g 0.207524 0.008455423
#> L0 695.603478 13.779414070
#> RSE 103.855273 NA
#>
#> $AIC
#> Model AICc AIC diff Weight
#> 1 VB 3535.10 0.00 1
#> 2 Log 3605.40 70.30 0
#> 3 Gom 3569.54 34.45 0# load example data set
data("maturity_data")
# Run function to estimate age-at-maturity parameters
Estimate_Age_Maturity(maturity_data)
#> Estimate SE
#> A50 13.95113 0.3033328
#> A95 16.53427 0.5321205
# A plot can also be returned with bootstrapped CI's.
Estimate_Age_Maturity(maturity_data, return = "plot")
For further examples of these and other functions use the provided vignettes
These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
Health stats visible at Monitor.