Phase I/II dose-finding trials, i.e. those that search for a dose my efficacy and toxicity outcomes search for the optimal biological dose (OBD), rather than the maximum tolerated dose (MTD) that is typically sought be traditional toxicity-only dose-finding.
efftox_fit(
dose_indices,
num_patients,
doses,
tox,
eff,
prob_tox,
prob_eff,
median_prob_tox,
median_prob_eff,
prob_acc_tox,
prob_acc_eff,
utility,
post_utility,
prob_obd,
acceptable,
recommended_dose,
dat,
fit
)A vector of integers representing the dose-levels under consideration.
Integer, the number of patients analysed.
vector of integers representing the dose given to the patients.
vector of integers representing the toxicity status of the patients.
vector of integers representing the efficacy status of the patients.
The posterior mean probabilities of toxicity at doses 1:n; a vector of numbers between 0 and 1.
The posterior mean probabilities of efficacy at doses 1:n; a vector of numbers between 0 and 1.
The posterior median probabilities of toxicity at doses 1:n; a vector of numbers between 0 and 1.
The posterior mean probabilities of efficacy at doses 1:n; a vector of numbers between 0 and 1.
The posterior mean probabilities that toxicity at the doses is acceptable, i.e. that it is less than the maximum toxicity threshold; a vector of numbers between 0 and 1.
The posterior mean probabilities that efficacy at the doses is acceptable, i.e. that it exceeds the minimum acceptable efficacy threshold; a vector of numbers between 0 and 1.
The utilities of doses 1:n, calculated by plugging the
posterior mean probabilities of efficacy and toxicity into the utility
formula, as advocated by Thall & Cook. Contrast to post_utility;
a vector of numbers.
The posterior mean utilities of doses 1:n, calculated
from the posterior distributions of the utilities. This is in contrast to
utility, which uses plug-in posterior means of efficacy and toxicity,
as advocated by Thall & Cook; a vector of numbers.
The posterior probability that each dose is the optimal
biological dose (OBD); a vector of numbers between 0 and 1. This probability
reflects the uncertainty remaining in the parameter distributions, whereas
prob_tox and prob_eff (etc) do not.
A vector of logical values to indicate whether doses 1:n are acceptable, according to the rules for acceptable efficacy & toxicity, and rules on not skipping untested doses.
An integer representing the dose-level recommended
for the next patient or cohort; or NA if stopping is recommended.
Object efftox_params containing data passed to
sampling.
An object of class stanfit,
containing the posterior samples.
See methods(class = "efftox_fit") for an overview of available
methods.
stan_efftox
stan_efftox_demo