examples/Design-class-DualDesign.R

In Roche/crmPack: Object-Oriented Implementation of CRM Designs

empty_data <- DataDual(doseGrid = c(1, 3, 5, 10, 15, 20, 25, 40, 50, 80, 100))

# Initialize the CRM model.
my_model <- DualEndpointRW(
  mean = c(0, 1),
  cov = matrix(c(1, 0, 0, 1), nrow = 2),
  sigma2betaW = 0.01,
  sigma2W = c(a = 0.1, b = 0.1),
  rho = c(a = 1, b = 1),
  rw1 = TRUE
)

# Choose the rule for selecting the next dose.
my_next_best <- NextBestDualEndpoint(
  target = c(0.9, 1),
  overdose = c(0.35, 1),
  max_overdose_prob = 0.25
)

# Choose the rule for the cohort-size.
my_size1 <- CohortSizeRange(
  intervals = c(0, 30),
  cohort_size = c(1, 3)
)
my_size2 <- CohortSizeDLT(
  intervals = c(0, 1),
  cohort_size = c(1, 3)
)
my_size <- maxSize(my_size1, my_size2)

# Choose the rule for stopping.
my_stopping1 <- StoppingTargetBiomarker(
  target = c(0.9, 1),
  prob = 0.5
)
my_stopping <- my_stopping1 | StoppingMinPatients(40)

# Choose the rule for dose increments.
my_increments <- IncrementsRelative(
  intervals = c(0, 20),
  increments = c(1, 0.33)
)

# Initialize the design.
design <- DualDesign(
  model = my_model,
  data = empty_data,
  nextBest = my_next_best,
  stopping = my_stopping,
  increments = my_increments,
  cohort_size = my_size,
  startingDose = 3
)