getLBodeSimFunction: Get a function to simulate a logic based ODE model.
In CNORode: ODE add-on to CellNOptR

Description Usage Arguments Value Note Author(s) See Also

This function is internally used by CNORode to configure the simulation function with default arguments.

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	getLBodeSimFunction(cnolist1, model1, adjMatrix1, indices1, odeParameters1,
	time1 = 1, verbose1 = 0, transfer_function1 = 3, reltol1 = 1e-04, atol1 = 0.001,
	maxStepSize1 = Inf, maxNumSteps1 = 1e+05, maxErrTestsFails1 = 50)

`cnolist1`	A list containing the experimental design and data.
`model1`	The logic model to be simulated.
`adjMatrix1`	An adjacency matrix from the model.
`indices1`	Indices to map data in the model. Obtained with indexFinder function from CellNOptR.
`odeParameters1`	A list with the ODEs parameter information. Obtained with `createLBodeContPars`.
`time1`	An integer with the index of the time point to start the simulation. Default is 1.
`verbose1`	A logical value that triggers a set of comments.
`transfer_function1`	The type of used transfer. Use 1 for no transfer function, 2 for Hill function and 3 for normalized Hill function.
`reltol1`	Relative Tolerance for numerical integration.
`atol1`	Absolute tolerance for numerical integration.
`maxStepSize1`	The maximum step size allowed to ODE solver.
`maxNumSteps1`	The maximum number of internal steps between two points being sampled before the solver fails.
`maxErrTestsFails1`	Specifies the maximum number of error test failures permitted in attempting one step.