generate_inits

DM.hab

DM.det

a vector of the number of groups of animals in area covered by each transect

G.transect

a vector giving the proportion of a strata covered by each transect

Area.trans

a vector of the relative areas of each strata

Area.hab

a vector mapping each transect to it's associated strata

Mapping

is point independence assumed (TRUE/FALSE)

point.ind

is spatial independence assumed? (TRUE/FALSE)

spat.ind

grp.mean

generate initial values for MCMC chain if not already specified by user

Functions for performing hierarchical analysis of distance
sampling data, with ability to use an areal spatial ICAR model on
top of user supplied covariates to get at variation in abundance
intensity.  The detection model can be specified as a function of
observer and individual covariates, where a parametric model is
supposed for the population level distribution of covariate values.
The model uses data augmentation and a reversible jump MCMC
algorithm to sample animals that were never observed.  Also
included is the ability to include point independence (increasing
correlation multiple observer's observations as a function of
distance, with independence assumed for distance=0 or first
distance bin), as well as the ability to model species
misclassification rates using a multinomial logit formulation on data
from double observers.  There is also the the ability to
include zero inflation, but this is only recommended for cases where
sample sizes and spatial coverage of the survey are high.

generate_inits: generate initial values for MCMC chain if not already specified by user

Description

Usage

Arguments

Value