BH_er_lambdacov_global_effectcov_global_responsecov_global {cxr} | R Documentation |
Effect response Beverton-Holt model with covariate effects on lambda, effect, and response
Description
The function for calculating fecundity given effect and response values is taken from Godoy et al. (2014). Note that, as e and r are not pair-specific, all species parameters are fit in the same function.
Usage
BH_er_lambdacov_global_effectcov_global_responsecov_global(
par,
fitness,
target,
density,
covariates,
fixed_parameters
)
Arguments
par |
1d vector with initial parameters in the order: lambda,lambda_cov,effect,effect_cov,response,response_cov,sigma |
fitness |
1d vector with fitness observations |
target |
matrix with species in rows, observations in columns. Value is 1 if a species is focal for a given observation, 0 otherwise. |
density |
matrix with species in rows, observations in columns. Value is density of each sp as neighbour for each observation. |
covariates |
numeric dataframe or matrix with observations in rows and covariates in columns. Each cell is the value of a covariate in a given observation |
fixed_parameters |
optional list specifying values of fixed parameters, with components "lambda","lambda_cov","effect","effect_cov", "response","response_cov". |
Value
log-likelihood value