createLBodeContPars: Create a list with ODE parameter information needed to...
In CNORode: ODE add-on to CellNOptR

Description Usage Arguments Value Author(s) Examples

Creates a list with the continuous parameters to simulate the model, upper and lower bounds for the parameter estimation, parameters names, indices of the parameters and other information.

	createLBodeContPars(model, LB_n = 1, LB_k = 0.1, LB_tau = 0.01, 
	UB_n = 5, UB_k = 0.9, UB_tau = 10, default_n = 3, default_k = 0.5,
	default_tau = 1, LB_in = c(), UB_in = c(), opt_n = TRUE, opt_k = TRUE,
	opt_tau = TRUE, random = FALSE)

`model`	The logic model to be simulated.
`LB_n`	A numeric value to be used as lower bound for all parameters of type n.
`LB_k`	A numeric value to be used as lower bound for all parameters of type k.
`LB_tau`	A numeric value to be used as lower bound for all parameters of type tau.
`UB_n`	A numeric value to be used as upper bound for all parameters of type n.
`UB_k`	A numeric value to be used as upper bound for all parameters of type k.
`UB_tau`	A numeric value to be used as upper bound for all parameters of type tau.
`default_n`	The default parameter to be used for every parameter of type n.
`default_k`	The default parameter to be used for every parameter of type k.
`default_tau`	The default parameter to be used for every parameter of type tau.
`LB_in`	An array with the the same length as ode_parameters$parValues with lower bounds for each specific parameter.
`UB_in`	An array with the the same length as ode_parameters$parValues with upper bounds for each specific parameter.
`opt_n`	Add all parameter n to the index of parameters to be fitted.
`opt_k`	Add all parameter k to the index of parameters to be fitted.
`opt_tau`	Add all parameter tau to the index of parameters to be fitted.
`random`	logical value that determines that a random solution is for the parameters to be optimized.

`parNames`	An array containing the names of the parameters.
`parValues`	An array containing the values of the parameters, in the same order as the names.
`index_opt_pars`	An array containing the indexes for the parameters to be fitted.
`index_n`	An array containing the indexes of the parameters of type n.
`index_k`	An array containing the indexes of the parameters of type k.
`index_tau`	An array containing the indexes of the parameters of type tau.
`LB`	An array containing the lower bound for each parameter.
`UB`	An array containing the upper bound for each parameter.

David Henriques, Thomas Cokelaer

	library(CNORode)
	data("ToyCNOlist",package="CNORode");
	data("ToyModel",package="CNORode");
	data("ToyIndices",package="CNORode");
	ode_parameters=createLBodeContPars(model, opt_n=FALSE,default_n=2,
	random=TRUE,LB_k=0.25,UB_k=0.8,LB_tau=0.01,UB_tau=10);