profile.simode {simode}

Calculate likelihood profiles for the model parameters

Description

Calculate likelihood profiles for the model parameters

Usage

## S3 method for class 'simode'
profile(
  fitted,
  which = NULL,
  optim_type = c("nls", "both"),
  step_size,
  max_steps = 100,
  alpha = 0.05,
  skip_err = T,
  trace = 0,
  save_to_log = F,
  ...
)

Arguments

fitted

simode object returned by a call to simode.

which

Which parameters to estimate the profile for.

optim_type

Whether to calculate the profiles based on maximum-likelihood optimization only ('nls') or based on integral-matching followed by maximum-likelihood optimization ('both').

step_size

Step size for profiling (one value for all parameters or a value for each parameter in which).

max_steps

Maximum number of steps to take in each direction.

alpha

Maximum (two-sided) likelihood ratio test confidence level to find.

skip_err

Whether on not to stop the calculation if encountering a problem with one point in the profile.

trace

Report level (0-4), with higher values producing more tracing information.

save_to_log

Whether to redirect output to log file. The log file will be saved to tempdir().

...

Additional argument(s) for methods.

Details

If the call to simode, which returned the fitted object given to this method, included a user-defined likelihood function (with the calc_nll argument), then the likelihood profiles will be calculated using this function. Otherwise, the profiles will be calculated using a likelihood based on a Gaussian distribuion with fixed sigma, where sigma will be estimated in the background together with the rest of the model parameters.

Value

The likelihood profiles.