brm_simulate_simple: Simple MMRM simulation.

In brms.mmrm: Bayesian MMRMs using 'brms'

Simple MMRM simulation.

Description

Simple function to simulate a dataset from a simple specialized MMRM.

Usage

brm_simulate_simple(
  n_group = 2L,
  n_patient = 100L,
  n_time = 4L,
  hyper_beta = 1,
  hyper_tau = 0.1,
  hyper_lambda = 1
)

Arguments

n_group	Positive integer of length 1, number of treatment groups.
n_patient	Positive integer of length 1, number of patients per treatment group.
n_time	Positive integer of length 1, number of discrete time points (e.g. scheduled study visits) per patient.
hyper_beta	Positive numeric of length 1, hyperparameter. Prior standard deviation of the fixed effect parameters beta.
hyper_tau	Positive numeric of length 1, hyperparameter. Prior standard deviation parameter of the residual log standard deviation parameters tau
hyper_lambda	Positive numeric of length 1, hyperparameter. Prior shape parameter of the LKJ correlation matrix of the residuals among discrete time points.

Details

Refer to the methods vignette for a full model specification. The brm_simulate_simple() function simulates a dataset from a simple pre-defined MMRM. It assumes a cell means structure for fixed effects, which means there is one fixed effect scalar parameter (element of vector beta) for each unique combination of levels of treatment group and discrete time point. The elements of beta have independent univariate normal priors with mean 0 and standard deviation hyper_beta. The residual log standard deviation parameters (elements of vector tau) have normal priors with mean 0 and standard deviation hyper_tau. The residual correlation matrix parameter lambda has an LKJ correlation prior with shape parameter hyper_lambda.

Value

A list of three objects:

• data: A tidy dataset with one row per patient per discrete time point and columns for the outcome and ID variables.

• model_matrix: A matrix with one row per row of data and columns that represent levels of the covariates.

• parameters: A named list of parameter draws sampled from the prior:

  • beta: numeric vector of fixed effects.

  • tau: numeric vector of residual log standard parameters for each time point.

  • sigma: numeric vector of residual standard parameters for each time point. sigma is equal to exp(tau).

  • lambda: correlation matrix of the residuals among the time points within each patient.

  • covariance: covariance matrix of the residuals among the time points within each patient. covariance is equal to diag(sigma) %*% lambda %*% diag(sigma).

See Also

Other simulation: brm_simulate_categorical(), brm_simulate_continuous(), brm_simulate_outline(), brm_simulate_prior()

Examples

set.seed(0L)
simulation <- brm_simulate_simple()
simulation$data

brms.mmrm documentation built on Oct. 3, 2024, 1:08 a.m.