pauwels2014 (version 1.0)

simulate_experiment_no_transform: Link to the ode solver.

Description

Simulate the kinetics of the system using the ode solver of package deSolve.

Usage

simulate_experiment_no_transform(theta, initial_conditions, knobj)

Arguments

theta

A parameter vector in physical space to be passed to the solver

initial_conditions

A vector of initial conditions to be passed to the solver

knobj

A knowledge list. See knobjs

Value

A deSolve table with attributes.

Details

The solver parameters are given by the global_parameters slot of knobj. The solver will call an executable which is defined in the src directory of the package under the name model0_simplified_mrna_rates. The number and order of parameters in theta and initial conditions in initial_conditions should correspond to the definition of the dynamical system as described in this file. See the vignette and manual of package deSolve.

Examples

## Generate the knowledge object with correct parameter value
knobj <- generate_our_knowledge(transform_params)

temp <- simulate_experiment_no_transform(knobj$global_parameters$true_params, 
 knobj$global_parameters$initial_conditions, knobj)

head(temp)