CNORfuzzy (version 1.14.0)

defaultParametersFuzzy: Create a list of default parameters

Description

Parameters are required at different levels in the Fuzzy optimisation. This function provides a list with all parameters that are necessary.

Usage

defaultParametersFuzzy(data=NA, model=NA, nTF=7)

Arguments

data

the CNOlist that contains the data that you will use

model

the model that you want to optimise

nTF

number of discrete values to be used for each transfer function parameter.

Value

params

a list of default parameters.

Details

The list contains 3 types of parameters:

• Fuzzy parameters (e.g, Type1Funs, Type2Funs, RedThresh, DoRefinement)
• GA parameters similar to those used in CellNOptR package (see gaDiscreteT1 or defaultParametersFuzzy

optimisation parameters related to the refinement step.

1. algorithm='NLOPT_LN_SBPLX'
2. xtol_abs=0.001
3. maxEval=1000
4. maxTime=5*60

In addition, you can set Model and Data (CNOlist).

Examples

    data(ToyModel,package="CellNOptR")
    data(CNOlistToy,package="CellNOptR")
    params = defaultParametersFuzzy(CNOlistToy, ToyModel)