generate_inits_misID: generate initial values for misID model if not already...

In hierarchicalDS: Functions to Perform Hierarchical Analysis of Distance Sampling Data

Description

generate initial values for misID model if not already specified by user

Usage

generate_inits_misID(DM.hab.pois, DM.hab.bern, DM.det, N.hab.pois.par,
  N.hab.bern.par, G.transect, Area.trans, Area.hab, Mapping, point.ind,
  spat.ind, grp.mean, misID, misID.mat, N.par.misID)

Arguments

DM.hab.pois	a list of design matrices for the Poisson habitat model (elements are named sp1,sp2, etc.)
DM.hab.bern	If a hurdle model, a list of design matrices for the Bernoulli habitat model (elements are named sp1,sp2, etc.) (NULL if not hurdle)
DM.det	design matrix for detection model
N.hab.pois.par	vector giving number of parameters in the Poisson habitat model for each species
N.hab.bern.par	vector giving number of parameters in the Bernoulli habitat model for each species (NULL if not hurdle)
G.transect	a matrix of the number of groups of animals in area covered by each transect; each row gives a separate species
Area.trans	a vector giving the proportion of a strata covered by each transect
Area.hab	a vector of the relative areas of each strata
Mapping	a vector mapping each transect to it's associated strata
point.ind	is point independence assumed (TRUE/FALSE)
spat.ind	is spatial independence assumed? (TRUE/FALSE)
grp.mean	a vector giving the pois1 parameter for group size (one entry for each species)
misID	if TRUE, indicates that misidentification is incorporated into modeling
misID.mat	a matrix specifying which elements of the misID matrix are linked to model equations
N.par.misID	a vector giving the number of parameters for each misID model (in multinomial logit space)

Value

a list of initial parameter values

Author(s)

Paul B. Conn

hierarchicalDS documentation built on July 3, 2019, 1:07 a.m.