Summarize nuisance MCMC output (used in combination with
mcmc.out() for key parameters).
mcmc.nuisance(
directory = "c:/mydirectory/",
run = "mymodel/",
file = "posteriors.sso",
file2 = "derived_posteriors.sso",
bothfiles = FALSE,
printstats = FALSE,
burn = 0,
header = TRUE,
thin = 1,
trace = 0,
labelstrings = "all",
columnnumbers = "all",
sep = ""
)Directory where all results are located, one level above directory for particular run.
Directory with files from a particular run.
Filename either with full path or relative to working directory.
Contents of the file that is referenced here should contain posterior samples
for nuisance parameters, e.g., posteriors.sso or
something written by SSgetMCMC.
Optional second file containing posterior samples for nuisance parameters. This could be derived_posteriors.sso.
TRUE/FALSE indicator on whether to read file2 in
addition to file1.
Return all the statistics for a closer look.
Optional burn-in value to apply on top of the option in the
starter file and SSgetMCMC().
Data file with header?
Optional thinning value to apply on top of the option in the
starter file, in the mcsave runtime command, and in
SSgetMCMC().
Plot trace for param # (to help sort out problem parameters).
Vector of strings that partially match the labels of the parameters you want to consider.
Vector of column numbers indicating the columns you want to consider.
Separator for data file passed to the read.table function.