prep4sim {CellNOptR} | R Documentation

## Prepare a model for simulation

### Description

Adds to the model some fields that are used by the simulation engine

### Usage

    prep4sim(model)

### Arguments

`model` | a model list, as output by readSIF, normally pre-processed but that is not a requirement of this function

### Details

This adds fields that are necessary for the simulation engine in a version that is extensible for constrained Fuzzy logic extension of the methods applied here (in development).

### Value

this function returns a list with fields:

`finalCube` | stores, for each reac(row) the location of its inputs (col)
`ixNeg` | stores, for each reac(row) and each input (col) whether it is a negative input
`ignoreCube` | logical matrix of the same size as the 2 above, that tells whether the particular cell is filled or not
`maxIx` | row vector that stores, for each reac, the location of its output
`modelname` | stores the name of the model from which these fields were derived
`maxInput` | stores the max number of inputs observed in the model for a single reaction

### Note

For internal usage since version 1.3.28

### Author(s)

C. Terfve, T. Cokelaer

### See Also

simulatorT1

### Examples

    data(ToyModel,package="CellNOptR")
    ToyFields4Sim<-prep4sim(ToyModel)

[Package CellNOptR version 1.30.0 Index]