BH_er_lambdacov_none_effectcov_none_responsecov_none: Effect response model without covariate effects

In RadicalCommEcol/cxr: A Toolbox for Modelling Species Coexistence in R

Effect response model without covariate effects

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_none_effectcov_none_responsecov_none(
  par,
  fitness,
  target,
  density,
  covariates,
  fixed_parameters
)

Arguments

par	1d vector with initial parameters in the order: lambda,effect,response,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	included for compatibility, not used in this model.
fixed_parameters	optional list specifying values of fixed parameters, with components "lambda","effect","response".

Value

log-likelihood value

RadicalCommEcol/cxr documentation built on Oct. 29, 2023, 10:07 p.m.