Rage: perturb_stochastic – R documentation

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perturb_stochastic

Calculate stochastic elasticities from a time-series of matrix population models and corresponding population vectors

Description

Calculate stochastic elasticities given a time-series of matrix population models and corresponding population vectors, using the method described in Haridas et al. (2009).

Usage

perturb_stochastic(X_t, u_t)

Arguments

`X_t`	A list of matrix population models
`u_t`	A list of corresponding population vectors

Value

A list of three matrices:

`E`	matrix of stochastic elasticities
`E_mu`	matrix of stochastic elasticities to mean transition rates
`E_sigma`	matrix of stochastic elasticities to the variance in transition rates

Author(s)

Patrick Barks <patrick.barks@gmail.com>

References

Haridas, C. V., Tuljapurkar, S., & Coulson, T. 2009. Estimating stochastic elasticities directly from longitudinal data. Ecology Letters, 12, 806-812. <doi:10.1111/j.1461-0248.2009.01330.x>

Examples

# generate list of random MPMs
N <- 20     # number of years
s <- 3      # matrix dimension
X <- list() # matrix population model at time t
u <- list() # population vector at time t

for(t in 1:N) {
  X[[t]] <- matrix(runif(s^2), nrow = s, ncol = s)
}

# derive corresponding series of population vectors
u <- pop_vectors(X)

# calculate stochastic elasticities
perturb_stochastic(X, u)

Rage

Life History Metrics from Matrix Population Models

v1.0.0

GPL-3

Authors

Patrick Barks [aut] (<https://orcid.org/0000-0002-5947-8151>), Danny Buss [ctb], Pol Capdevila [aut] (<https://orcid.org/0000-0002-2842-4302>), Hal Caswell [aut] (<https://orcid.org/0000-0003-4394-6894>), Judy P. Che-Castaldo [aut] (<https://orcid.org/0000-0002-9118-9202>), John Jackson [aut] (<https://orcid.org/0000-0002-4563-2840>), Tamora James [aut] (<https://orcid.org/0000-0003-1363-4742>), Owen Jones [aut, cre] (<https://orcid.org/0000-0001-5720-4686>), Sam Levin [aut] (<https://orcid.org/0000-0002-3289-9925>), William K. Petry [aut] (<https://orcid.org/0000-0002-5230-5987>), Roberto Salguero-Gomez [aut] (<https://orcid.org/0000-0002-6085-4433>), Caroline Schuette [ctb] (<https://orcid.org/0000-0002-2063-8736>), Iain Stott [aut] (<https://orcid.org/0000-0003-2724-7436>), Chelsea C. Thomas [aut] (<https://orcid.org/0000-0002-8155-9353>)

Initial release