convert.HDS.to.mcmc

list vector providing MCMC samples for each parameter type

MCMC

N.hab.pois.par

N.hab.bern.par

n.ind.cov

number of columns in Cov.prior.parms matrix

n.cov.cols

Hab.pois.names

Hab.bern.names

Det.names

Cov.names

MisID.names

N.par.misID

misID.mat

fix.tau.nu

misID

spat.ind

point.ind

function to convert HierarchicalDS MCMC list vector (used in estimation) into an mcmc object (cf. coda package)

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.

Paul B Conn

hierarchicalDS

Functions to Perform Hierarchical Analysis of Distance Sampling
Data

convert.HDS.to.mcmc function

function to convert HierarchicalDS MCMC list vector (used in estimation) into an mcmc object (cf. coda package) — convert.HDS.to.mcmc

function to convert HierarchicalDS MCMC list vector (used in estimation) into an mcmc object (cf. coda package)

convert.HDS.to.mcmc: function to convert HierarchicalDS MCMC list vector (used in estimation) into an mcmc object (cf. coda package)

Description

Usage

Arguments