read.mcmc {BAMSE}R Documentation

Read BAMSE output

Description

Reads BAMSE output and return an MCMC object

Usage

read.mcmc(name)

Arguments

name the path and name of the BAMSE output

Details

For large data set this may take several minutes

Value

burnin The burnin from the c++ program (0 unless otherwise specified)
env the number of environmental factors
snp the number of SNPs
individuals the number of individuals
info a matrix with informtion of each sampled combination of risk sets
visit a matrix with the sampled risk sets
kappa kappa (prior for the variance for the means of each risk set)
kappa.multi the factor that the 1/(squared range) was multiplied with
max.active the specified maximum active components in each risk set
min.active the specified minimum active components in each risk set
max.risksets the specified maximum number of risk sets
min.risksets the specified minimum number of risk sets
max.trait the upper bound for the means
min.trait the lower bound for the means
mid the midrange of the input data
mu the mean for the prior of the means of the risk sets
name the name of the BAMSE output file
parameter.names the names of the parameters (not specified by the user)
sampels the number of sampels from the Markov chain
prior.active the parameter specifying the geometric distributed prior for the number of components in a risk set
prior.riskset the parameter specifying the geometric distributed prior for the number of risk set
runtime the number of iterations of the Markov chain
sd.max The maximum allowed standard dividation for the normal distributions
seed The seed
thinning The thinning of the samples
adj the number of adjustment factors
file the name of the input file

Author(s)

Anders Albrechtsen


[Package BAMSE version 2.0 Index]