Compute MCMC used in section 5.3
1 2 3 4 5 6 7 8 9 10 11 | smi_sec_5_4_compute_mcmc(
out_dir,
eta_all = seq(0.1, 1, by = 0.1),
force_compute_mcmc = FALSE,
n_iter = 5000,
n_iter_sub = 500,
n_warmup = 1000,
n_cores = 8,
seed = 123,
pkg_dir = system.file(package = "aistats2020smi")
)
|
out_dir |
Directory where outputs are stored |
eta_all |
Levels of influence of the Poisson module |
force_compute_mcmc |
To avoid computation time, completed MCMC is not recomputed, unless force_compute_mcmc is True |
n_iter |
Number of iterations in the main chain |
n_iter_sub |
Number of iterations in the sub-chain for the two-stage MCMC |
n_warmup |
Number of iterations used for warm-up |
n_cores |
Number of cores used by stan |
seed |
Set random seed before MCMC starts for reproducibility |
pkg_dir |
Internal directory where the package is installed. Used to retrieve stan scripts for the HPV model. |
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