Function reference • aae.pop

Defining population dynamics models
`dynamics()` `update(<dynamics>)` `is.dynamics()`	Create and update population dynamics objects
Simulating population dynamics
`simulate(<dynamics>)` `simulate(<template>)` `is.simulation()` `is.simulation_list()`	Simulate single or multispecies population dynamics in R
Summarising population dynamics
`pr_extinct()`	Calculate (quasi-)extinction risk for a `simulate` object
`emps()`	Calculate expected minimum population size (EMPS) for a `simulate` object
`risk_curve()`	Calculate (quasi-)extinction risk at multiple thresholds for a `simulate` object
`exps()`	Calculate expected population size for a `simulate` object based on generic functions (ExPS)
`get_pdf()`	Calculate the probability density of a summary statistic across all iterations of a `simulate` object
`get_cdf()`	Calculate the cumulative distribution function of a summary statistic across all iterations of a `simulate` object
Adding density dependence
`density_dependence()` `density_dependence_n()`	Specify density dependence in models of population dynamics
`beverton_holt()` `ricker()`	Common forms of density dependence
Adding stochasticity
`environmental_stochasticity()` `demographic_stochasticity()`	Specify environmental and demographic stochasticity in models of population dynamics
Adding covariates
`covariates()` `format_covariates()`	Specify covariate dependence in models of population dynamics
Subsetting population matrices
`reproduction()` `survival()` `transition()` `all_cells()` `all_classes()` `combine()`	Isolate elements of population dynamics models
Updating population abundances
`update_crossprod()` `update_binomial_leslie()` `update_multinomial()`	Functions for a single time-step update
Adding metapopulation structure
`metapopulation()` `is.metapopulation()`	Create a metapopulation dynamics object
`dispersal()`	Specify dispersal between populations in a metapopulation model
Modelling multiple species
`multispecies()` `is.multispecies()` `is.interaction()`	Create a population dynamics object with multiple species
`pairwise_interaction()`	Specify interactions between two species
Helpers
`rmultiunit()` `rmultiunit_from_real()` `runit_from_real()` `runit()` `unit_to_real()`	Random number generators not available in existing R packages

Reference

Defining population dynamics models

Simulating population dynamics

Summarising population dynamics

Adding density dependence

Adding stochasticity

Adding covariates

Subsetting population matrices

Updating population abundances

Adding metapopulation structure

Modelling multiple species

Helpers