efftox_fit-class: Class of model fit by 'trialr' using the EffTox dose-finding...

In trialr: Clinical Trial Designs in 'rstan'

Class of model fit by trialr using the EffTox dose-finding design.

Description

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.

Usage

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
)

Arguments

dose_indices	A vector of integers representing the dose-levels under consideration.
num_patients	Integer, the number of patients analysed.
doses	vector of integers representing the dose given to the patients.
tox	vector of integers representing the toxicity status of the patients.
eff	vector of integers representing the efficacy status of the patients.
prob_tox	The posterior mean probabilities of toxicity at doses 1:n; a vector of numbers between 0 and 1.
prob_eff	The posterior mean probabilities of efficacy at doses 1:n; a vector of numbers between 0 and 1.
median_prob_tox	The posterior median probabilities of toxicity at doses 1:n; a vector of numbers between 0 and 1.
median_prob_eff	The posterior mean probabilities of efficacy at doses 1:n; a vector of numbers between 0 and 1.
prob_acc_tox	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.
prob_acc_eff	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.
utility	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.
post_utility	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.
prob_obd	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.
acceptable	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.
recommended_dose	An integer representing the dose-level recommended for the next patient or cohort; or NA if stopping is recommended.
dat	Object efftox_params containing data passed to sampling.
fit	An object of class stanfit, containing the posterior samples.

Details

See methods(class = "efftox_fit") for an overview of available methods.

See Also

stan_efftox stan_efftox_demo

trialr documentation built on April 1, 2023, 12:03 a.m.