AssignEffTox: Determines the optimal dose to assign the next patient...

In Phase123: Simulating and Conducting Phase 123 Trials

Description

This function returns the optimal acceptable dose number to assign the next patient cohort or stops the trial if no dose is deemed acceptable.

Usage

AssignEffTox(YE, YT, Doses, Dose, DosesTried, Hypermeans, Hypervars,
  Contour, PiLim, ProbLim, B)

Arguments

YE	Vector containing observed efficacy indicators.
YT	Vector containing observed toxicity indicators.
Doses	Vector containing numbered Doses of patients in trial.
Dose	Vector containing the standardized doses considered.
DosesTried	Binary vector corresponding to which doses have been tried.
Hypermeans	Vector containing prior hypermeans of length 6 for Eff-Tox parameters.
Hypervars	Vector containing prior hypervariances of length 6 for Eff-Tox parameters.
Contour	Vector containing 4 entries used to make the desireability function. Contour[1] contains a desired toxicity probability given efficacy, Countour[2] contains a desired efficacy probability given toxicity, and (Contour[3],Contour[4]) is an equally desireable pair of efficacy and toxicity probabilities that are non-zero or one.
PiLim	Vector of length two with PiLim[1] containing the acceptable lower limit on efficacy probability and PiLim[2] containing the acceptable upper limit on toxicity probability.
ProbLim	Vector of length two with ProbLim[1] containing the probability cutoff for acceptable efficacy probability and ProbLim[2] containing the probability cutoff for acceptable toxicity probability.
B	Number of iterations to perform in the MCMC.

Value

The optimal dose level to administer the next patient cohort.

Examples

##Doses, YE,YT
Doses= c(1,1,1,2,2,2,1,1,1,3,3,3,1,1,1,2,2,2)
YE = c(0,0,1,1,1,0,0,0,0,1,1,1,0,0,1,1,1,0)
YT=c(0,0,0,1,1,0,1,0,0,1,1,1,0,0,0,1,0,0)
##Vector of Numerical Doses
Dose = c(1,2,3,3.5,5)
Dose=(Dose-mean(Dose))/sd(Dose)
##Five doses, but only 3 tried so we have
DosesTried=c(1,1,1,0,0)
## Contour Vector
Contour = c(.35, .75,.7,.4)
##Hypermeans
Hypermeans = c(.022,3.45,0,-4.23,3.1,0)
Hypervars = c(2.6761, 2.6852, .2, 3.1304, 3.1165, 1)
Hypervars=Hypervars^2
##Acceptability Criteria
PiLim = c(.3,.4)
ProbLim=c(.1,.1)
##Number of iterations
B=2000
AssignEffTox(YE,YT, Doses, Dose, DosesTried, Hypermeans,  Hypervars, Contour, PiLim,  ProbLim, B )

Phase123 documentation built on May 2, 2019, 9:56 a.m.