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biomLevel

Compute the biomarker level for a given dose, given model and samples


Description

Compute the biomarker level for a given dose, given model and samples

Usage

biomLevel(dose, model, samples, ...)

## S4 method for signature 'numeric,DualEndpoint,Samples'
biomLevel(dose, model, samples,
  xLevel, ...)

Arguments

dose

the dose

model

the DualEndpoint object

samples

the Samples object

...

unused

xLevel

the grid index of dose

Methods (by class)

  • dose = numeric,model = DualEndpoint,samples = Samples: Here it is very easy, we just return the corresponding column (index xLevel) of the biomarker samples matrix, since we save that in the samples

Examples

# Create the data
data <- DataDual(
  x=c(0.1, 0.5, 1.5, 3, 6, 10, 10, 10,
      20, 20, 20, 40, 40, 40, 50, 50, 50),
  y=c(0, 0, 0, 0, 0, 0, 1, 0,
      0, 1, 1, 0, 0, 1, 0, 1, 1),
  w=c(0.31, 0.42, 0.59, 0.45, 0.6, 0.7, 0.55, 0.6,
      0.52, 0.54, 0.56, 0.43, 0.41, 0.39, 0.34, 0.38, 0.21),
  doseGrid=c(0.1, 0.5, 1.5, 3, 6,
             seq(from=10, to=80, by=2)))

# Initialize the Dual-Endpoint model (in this case RW1)
model <- DualEndpointRW(mu = c(0, 1),
                        Sigma = 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),
                        smooth = "RW1")

# Set-up some MCMC parameters and generate samples from the posterior
options <- McmcOptions(burnin=100,
                       step=2,
                       samples=500)
set.seed(94)
samples <- mcmc(data, model, options)

# Obtain the biomarker level for a given dose, given model and samples
biomLevel(dose = 0.5,
          model = model,
          samples = samples,
          xLevel = 2)

crmPack

Object-Oriented Implementation of CRM Designs

v1.0.0
GPL (>= 2)
Authors
Daniel Sabanes Bove [aut], Wai Yin Yeung [aut], Giuseppe Palermo [aut, cre], Thomas Jaki [aut]
Initial release

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