tox.profile: Generates DLTs and calculate the likelihood-ratio (LR) for...

In alyssamv/iAdapt: Two-Stage Adaptive Dose-Finding Clinical Trial Design

Description

Gives toxicity profile (number of dose-limiting toxicities) and likelihood ratio of safety for each dose.

Usage

tox.profile(dose, dose.tox, p1, p2, K, coh.size)

Arguments

dose	number of doses to be tested (scalar)
dose.tox	vector of true toxicities for each dose. Values range from 0 - 1.
p1	toxicity under null (unsafe DLT rate). Values range from 0 - 1.
p2	toxicity under alternative (safe DLT rate). Values range from 0 - 1; p1 > p2
K	threshold for LR. Takes integer values: 1,2,...(recommended K=2)
coh.size	cohort size (number of patients) per dose (Stage 1)

Value

4-column matrix containing dose assignment, dose-limiting toxicities at each dose, cohort number, and likelihood ratio.

Examples

# Number of pre-specified dose levels
dose <- 5
# Vector of true toxicities associated with each dose
dose.tox <- c(0.05, 0.10, 0.20, 0.35, 0.45)       
# Acceptable (p2) and unacceptable (p1) DLT rates used for establishing safety
p1 <- 0.40                                     
p2 <- 0.15    

# Likelihood-ratio (LR) threshold
K <- 2                                          

# Cohort size used in stage 1
coh.size <- 3 

# Vector of true mean efficacies per dose (here mean percent persistence per dose)
m <- c(5, 15, 40, 65, 80)   # MUST BE THE SAME LENGTH AS dose.tox                  

# Efficacy(equal) variance per dose
v <- rep(0.01, 5) 

# Total sample size (stages 1&2)                            
N <- 25                                        

# Stopping rule: if dose 1 is the only safe dose, allocate up to 9 pts.
stop.rule <- 9 

tox.profile(dose = dose, dose.tox = dose.tox, p1 = p1, p2 = p2, K = K, coh.size = coh.size)

alyssamv/iAdapt documentation built on Aug. 28, 2019, 6:49 p.m.