inference.control: inference.control function

In spatsurv: Bayesian Spatial Survival Analysis with Parametric Proportional Hazards Models

inference.control function

Description

A function to control inferential settings. This function is used to set parameters for more advanced use of spatsurv.

Usage

inference.control(
  gridded = FALSE,
  cellwidth = NULL,
  ext = 2,
  imputation = NULL,
  optimcontrol = NULL,
  hessian = FALSE,
  plotcal = FALSE,
  timeonlyMCMC = FALSE,
  nugget = FALSE,
  savenugget = FALSE,
  split = 0.5,
  logUsigma_priormean = 0,
  logUsigma_priorsd = 0.5,
  nis = NULL,
  olinfo = NULL
)

Arguments

gridded	logical. Whether to perform compuation on a grid. Default is FALSE.
cellwidth	the width of computational cells to use
ext	integer the number of times to extend the computational grid by in order to perform compuitation. The default is 2.
imputation	for polygonal data, an optional model for inference at the sub-polygonal level, see function imputationModel
optimcontrol	a list of optional arguments to be passed to optim for non-spatial models
hessian	whether to return a numerical hessian. Set this to TRUE for non-spatial models. equal to the number of parameters of the baseline hazard
plotcal	logical, whether to produce plots of the MCMC calibration process, this is a technical option and should onyl be set to TRUE if poor mixing is evident (the printed h is low), then it is also useful to use a graphics device with multiple plotting windows.
timeonlyMCMC	logical, whether to only time the MCMC part of the algorithm, or whether to include in the reported running time the time taken to calibrate the method (default)
nugget	whether to include a nugget effect in the estimation. Note that only the mean and variance of the nugget effect is returned.
savenugget	whether to save the MCMC chain for the nugget effect
split	how to split the spatial and nugget proposal variance as a the proportion of variance assigned to the spatial effect apriori. Default is 0.5
logUsigma_priormean	prior mean for log standard deviation of nugget effect
logUsigma_priorsd	prior sd for log standard deviation of nugget effect
nis	list of cell counts, each element being a matrix, with attributes "x" and "y" giving grid centroids in x and y directions. Used to impute locations of aggregated data:.
olinfo	to be supplied with nis, if continuous inference from aggregated data is required

Value

returns parameters to be used in the function survspat

See Also

survspat

spatsurv documentation built on Oct. 19, 2023, 9:07 a.m.