Fit lab-site-level recent wastewater trends with BRMS.

Usage

fit_ww_trend(
  data,
  exp_rate_conc_pop_prior_mean,
  exp_rate_conc_pop_prior_sd,
  sd_exp_rate_conc_prior_mode,
  sd_exp_rate_conc_prior_sd,
  t0_conc_pop_prior_mean,
  t0_conc_pop_prior_sd,
  sd_t0_conc_prior_mode,
  sd_t0_conc_prior_sd,
  log_sd_obs_pop_prior_mean,
  log_sd_obs_pop_prior_sd,
  sd_log_sd_obs_prior_mode,
  sd_log_sd_obs_prior_sd,
  seed,
  control,
  ...
)

Arguments

data: Data to fit. Must have columns "time", 'lab_site_index", "conc", and "cens".
exp_rate_conc_pop_prior_mean: Mean for the Normal prior on the population-wide exponential growth rate of wastewater viral genome concentrations.
exp_rate_conc_pop_prior_sd: Standard deviation for the Normal prior on the population-wide exponential growth rate of wastewater viral genome concentrations.
sd_exp_rate_conc_prior_mode: Mode for the positive-constrained Normal prior on the standard deviation of wastewater viral genome concentration exponential growth rates (which governs the variability in growth rate among lab-sites)
sd_exp_rate_conc_prior_sd: Standard deviation for the positive-constrained Normal prior on the standard deviation of wastewater viral genome concentration exponential growth rates (which governs the variability in growth rate among lab-sites)
t0_conc_pop_prior_mean: Mean for the Normal prior on the population-wide wastewater viral genome concentration at time t = 0.
t0_conc_pop_prior_sd: Standard deviation for the Normal prior on the population-wide wastewater viral genome concentration at time t = 0.
sd_t0_conc_prior_mode: Mode for the positive-constrained Normal prior on the standard deviation of wastewater viral genome concentrations at time t = 0 (which governs the variability in initial concentration among lab-sites).
sd_t0_conc_prior_sd: Standard deviation for the positive-constrained Normal prior on the standard deviation of wastewater viral genome concentrations at time t = 0 (which governs the variability in initial concentration among lab-sites).
log_sd_obs_pop_prior_mean: Mean for the log of the population-wide observation error standard deviation (observation errors are Normal).
log_sd_obs_pop_prior_sd: Standard deviation for the log of the population-wide observation error standard deviation (observation errors are Normal).
sd_log_sd_obs_prior_mode: Mode for the positive-constrained Normal prior on the standard deviation of log lab-site-specific observation error standard deviations (which governs the variability in observation error scale among lab-sites).
sd_log_sd_obs_prior_sd: Standard deviation for the positive-constrained Normal prior on the standard deviation observation error standard deviations (which governs the variability in observation error scale among lab-sites).
seed: Seed for cmdnstan's pseudorandom number generator.
control: list of control parameters passed to stan via brms::brm(). Default NULL.
...: Additional keyword arguments passed to brms::brm()