preprocessing {CellNOptR} | R Documentation

## Performs the pre-processing steps

### Description

This function performs any of the following preprocessing steps:

1. removes Non-Controllable and Non-Observables nodes

2. compress the model

3. and-gates expansion

### Usage

    preprocessing(data, model, cutNONC=TRUE, compression=TRUE,
        expansion=TRUE, ignoreList=NA, maxInputsPerGate=2, verbose=TRUE)

### Arguments

`data` | the CNOlist that contains the data that you will use
`model` | the model object as returned by readSIF
`cutNONC` | Removes the NONC nodes using cutNONC and findNONC (Default is TRUE).
`compression` | Compress the model using compressModel (Default is TRUE).
`expansion` | Add and gates using expandGates (Default is TRUE).
`ignoreList` | list of reactions indices to ignore in the expansion step.
`maxInputsPerGate` | used by the expandGates function to set maximum inputs per and gates.
`verbose` | verbose option (Default is TRUE).

### Details

The function can apply any or none of the pre-processing steps. It returns the new model and the indices returned by indexFinder.

### Value

the new model

### Author(s)

T. Cokelaer

### See Also

readSIF, readMIDAS, cutNONC, findNONC, compressModel, expandGates.

### Examples

    data(ToyModel,package="CellNOptR")
    data(CNOlistToy,package="CellNOptR")
    model = preprocessing(CNOlistToy, ToyModel, cutNONC=FALSE)

[Package CellNOptR version 1.26.0 Index]