EstimationStep#
- class pharmpy.EstimationStep(method, interaction=False, cov=False, evaluation=False, maximum_evaluations=None, laplace=False, isample=None, niter=None, auto=None, keep_every_nth_iter=None, residuals=None, predictions=None, solver=None, solver_rtol=None, solver_atol=None, tool_options=None, eta_derivatives=None, epsilon_derivatives=None)[source]#
Bases:
object
Definition of one estimation operation
Attributes Summary
Let estimation tool automatically add settings
Should the parameter uncertainty be estimated?
List of names of epsilons for which to calculate derivatives
List of names of etas for which to calculate derivatives
Only perform model evaluation
Preserve eta-epsilon interaction in the computation of the objective function
Number of samples per subject (or similar) for EM methods
Keep results for every nth iteration
Use the laplacian method
Maximum allowable number of evaluations of the objective function
Name of the estimation method
Number of iterations for EM methods
List of predictions to estimate
List of residuals to calculate
Numerical solver to use when numerically solving the ODE system Supported solvers and their corresponding NONMEM ADVAN
Absolute tolerance for numerical ODE system solver
Relative tolerance for numerical ODE system solver
Dictionary of tool specific options
Methods Summary
derive
(**kwargs)Derive a new EstimationStep with new properties
Attributes Documentation
- auto#
Let estimation tool automatically add settings
- cov#
Should the parameter uncertainty be estimated?
- epsilon_derivatives#
List of names of epsilons for which to calculate derivatives
- eta_derivatives#
List of names of etas for which to calculate derivatives
- evaluation#
Only perform model evaluation
- interaction#
Preserve eta-epsilon interaction in the computation of the objective function
- isample#
Number of samples per subject (or similar) for EM methods
- keep_every_nth_iter#
Keep results for every nth iteration
- laplace#
Use the laplacian method
- maximum_evaluations#
Maximum allowable number of evaluations of the objective function
- method#
Name of the estimation method
- niter#
Number of iterations for EM methods
- predictions#
List of predictions to estimate
- residuals#
List of residuals to calculate
- solver#
Numerical solver to use when numerically solving the ODE system Supported solvers and their corresponding NONMEM ADVAN
Solver
NONMEM ADVAN
CVODES
ADVAN14
DGEAR
ADVAN8
DVERK
ADVAN6
IDA
ADVAN15
LSODA
ADVAN13
LSODI
ADVAN9
- solver_atol#
Absolute tolerance for numerical ODE system solver
- solver_rtol#
Relative tolerance for numerical ODE system solver
- supported_methods = ['FO', 'FOCE', 'ITS', 'IMPMAP', 'IMP', 'SAEM', 'BAYES']#
- tool_options#
Dictionary of tool specific options
Methods Documentation