Generates figures for each cohort/output for a given set of parameter estimates.
system_plot_cohorts(
erp,
plot_opts = c(),
cfg,
analysis_name = "analysis",
archive_results = TRUE,
prefix = NULL
)List of plot outputs containing two elements timecourse and
obs_pred, for the time course of and observed vs predicted,
respectively. Both of these fields contain three elements for a given
output. For example, say there is an output named PK the both the
timecourse and obs_pred elements will have a field named
PK containing a ggplot object
and two fields PK_png and PK_pdf containing the paths to the
files containing that figure in the respective formats.
output from system_simulate_estimation_results
list controling how predictions and data are overlaid
ubiquity system object
string containing the name of the analysis
boolean variable to control whether results will be archived
depreciated input mapped to analysis_name
The general format for a plot option for a given output (OUTPUT) is:
plot_opts$outputs$OUTPUTt$option = value
The following options are:
yscale and xscale = "linear" or "log"
ylabel and xlabel = "text"
xlim and ylim = c(min, max)
It is also possible to control the height and width of the time course tc and observed vs predicted op file by specifying the following in the default units of ggsave.
plot_opts$tc$width = 10
plot_opts$tc$height = 5.5
plot_opts$op$width = 10
plot_opts$op$height = 8.0
To control the figures that are generated you can set the purpose to either "print", "present" (default) or "shiny".
plot_opts$purpose = "present"
The estimation vignette (vignette("Estimation", package = "ubiquity"))