plot_case_study: visualize the PERCH etiology regression with a continuous...

In zhenkewu/baker: "Nested Partially Latent Class Models"

visualize the PERCH etiology regression with a continuous covariate

Description

This function is specifically designed for PERCH data, e.g., (NB: dealing with NoA, multiple-pathogen causes, other continuous covariates? also there this function only plots the first slice - so generalization may be useful - give users an option to choose slice s; currently default to the first slice.)

Usage

plot_case_study(
  DIR_NPLCM,
  stratum_bool = stratum_bool,
  bugs.dat = NULL,
  slice = 1,
  RES_NPLCM = NULL,
  do_plot = TRUE,
  do_rug = FALSE,
  return_metric = TRUE
)

Arguments

DIR_NPLCM	File path to the folder containing posterior samples
stratum_bool	integer; for this function, indicates which strata to plot
bugs.dat	The posterior samples (loaded into the environment to save time) -> default is NULL
slice	integer; specifies which slice of bronze-standard data to visualize; Default to 1.
RES_NPLCM	pre-read res_nplcm; default to NULL.
do_plot	TRUE for plotting
do_rug	TRUE for plotting
return_metric	TRUE for showing overall mean etiology, quantiles, s.d., and if truth$Eti is supplied, coverage, bias, truth and integrated mean squared errors (IMSE).

Value

A figure of etiology regression curves and some marginal positive rate assessment of model fit; See example for the legends.

zhenkewu/baker documentation built on May 6, 2024, 11:19 p.m.