Add random white noise to the parameters of a model.

Source: R/JitterModelParams.R

Add random white noise to the parameters of a model.

JitterModelParams(
  model,
  argsPCMParamLowerLimit = NULL,
  argsPCMParamUpperLimit = NULL,
  numJitterRootRegimeFit = 1000,
  sdJitterRootRegimeFit = 0.5,
  numJitterAllRegimeFits = 1000,
  sdJitterAllRegimeFits = 0.5,
  returnWithinBoundsOnly = TRUE,
  verbose = FALSE
)

Arguments

model

a PCM object.
argsPCMParamLowerLimit, argsPCMParamUpperLimit

named lists with arguments passed to the functions PCMParamLowerLimit and PCMParamUpperLimit, respectively. Default: NULL.
numJitterRootRegimeFit, numJitterAllRegimeFits

integers specifying how many initial parameter vectors should be generated by 'jittering' the parameters of the root regime of a previously found fit (such as a clade-fit), and by jittering all regime parameters. Default: 100.
sdJitterRootRegimeFit, sdJitterAllRegimeFits

white noise standard deviation. Default: 0.5.
returnWithinBoundsOnly

logical indicating if only vectors within the boundaries specified by PCMParamLowerLimit(model) and PCMParamUpperLimit(model) should be returned.
verbose

logical indicating if debug messages should be printed to the console. Default: FALSE.

Value

a numerical matrix, each row corresponding to a jittered parameter vector.