plot_crm: Plot of posterior estimates from the CRM

In dtpcrm: Dose Transition Pathways for Continual Reassessment Method

Description

Provides functionality for plotting the posterior estimates of probabilities of toxicity at each dose level for both the most recent update and for past cohort updates if specified.

Usage

plot_crm(crm, dose_labels, cohort_sizes = NULL, file = NULL,
                height = 600, width = 750, dose_func = NULL, ...,
                ylim = c(0, 1), lwd = 1, cex.axis = 1, cex.lab = 1,
                cex = 1, cohort.last = F)

Arguments

crm	An object of class 'mtd' produced by applied_crm to be plotted.
dose_labels	A vector of character strings detailing the labels to be used for each dose level in the plot.
cohort_sizes	An optional vector of cohort sizes; if provided the previous estimates for each cohort will be plotted in addition.
file	An optional string for the file name; if provided the plot will be saved as a .PNG to the current working directory under the provided file name.
height	A numeric value specifying the vertical pixel count of the plot. Default is 600.
width	A numeric value specifiying the horizontal pixel count of the plot. Default is 750.
dose_func	Must be provided if cohort_sizes is provided. The function to be used to when implementing the CRM for previous cohorts.
...	Arguments to be provided to dose_func detailing CRM specification. See applied_crm.
ylim	The y-axis range. Default is c(0, 1)
lwd	line width relative to the default (default=1). 2 is twice as wide. Default is 1.
cex.axis	The magnification to be used for axis annotation relative to the current setting of cex. Default is 1.
cex.lab	The magnification to be used for x and y labels relative to the current setting of cex. Default is 1.
cex	A numerical value giving the amount by which plotting text and symbols should be magnified relative to the default. Default is 1.
cohort.last	If TRUE, the last cohort will have lwd = 6 for emphasis. Default is FALSE.

Details

Produces a plot of current dose-toxicity estimates including the priors and outputs a .png of plot to current directory if 'file' is provided. Potential for history of estimates by cohort if cohort.sizes is provided; dose_func is required to do this.

Examples

prior  <- c(0.1, 0.3, 0.5)
target <- 0.2
tox    <- c(0, 0, 1, 0, 1, 1)
level  <- c(1, 1, 1, 2, 2, 2)

crm <- applied_crm(prior, target, tox, level, no_skip_esc = TRUE, no_skip_deesc = TRUE,
                   global_coherent_esc = TRUE, stop_func = NULL)

plot_crm(crm, dose_labels = c("1", "2", "3"))

dtpcrm documentation built on Aug. 20, 2019, 5:23 p.m.