read.mcmc {BAMSE} | R Documentation |
Reads BAMSE output and return an MCMC object
read.mcmc(name)
name |
the path and name of the BAMSE output |
For large data set this may take several minutes
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 |
Anders Albrechtsen