nmixS: nmixS

In dslramsey/eradicate: Functions to support the "eradication tools" shiny app

nmixS

Description

nmixS fits the N-mixture model of Royle et al (2004) to 'stacked' data from M sites over T primary periods (sessions) with each primary period consisting of J secondary periods. Currently supported models include the Poisson and Negative binomial

Usage

nmixS(lamformula, detformula, data, K, mixture=c("P", "NB"),
starts, method="BFGS", se=TRUE, ...)

Arguments

lamformula	formula for the latent abundance component.
detformula	formula for the detection component. Only site-level covariates are allowed for the detection component. This differs from the similar model in unmarked.
data	A eFrameS object containing the response (counts) for each site, indexed by primary period (sessions) and site-level covariates. see eFrameS for how to format the required data.
K	Integer upper index of integration for abundance. This should be set high enough so that it does not affect the parameter estimates. Note that computation time will increase with K
mixture	Distribution model for the latent abundance, either Poisson (P) or Negative-binomial (NB).
starts	Initial values for parameters
method	Optimisation method
se	flag to return the standard error (hessian).

Value

a efit model object.

Examples

 counts<- san_nic_open$counts
 emf <- eFrameS(y=counts)
 mod <- nmixS(~.season, ~1, data=emf)
 Nhat<- calcN(mod)

dslramsey/eradicate documentation built on March 16, 2024, 1:40 p.m.