Usage
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,
initial_state1=0.1)
Arguments
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.
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.
initial_state1
initial state of the dynamic nodes (non-measured) (Defaults to 0.1)