cutNONC: Cuts the non-observable/non-controllable species from the...

In saezlab/CellNOptR: Training of boolean logic models of signalling networks using prior knowledge networks and perturbation data

Cuts the non-observable/non-controllable species from the model

Description

This function cuts the non-observable and/or non-controllable species from the model, and returns a cut model.

Usage

cutNONC(model, NONCindexes)

Arguments

model	a model structure, as produced by readSIF
NONCindexes	a vector of indices of species to remove in that model, as produced for example by findNONC

Details

This function takes in a model and a vector of indices of species to remove in that model and it removes those species and any reaction involving them (be aware, if you have x&y=z and x is to be removed, then the function produces y=z, because it works by removing entire rows of the model matrices and then removes the columns that do not have either an input or an output). This function could actually be used to cut any species, not only NONC species.

Value

a model

Note

No need to call this function directly since version 0.99.24. Use preprocessing instead.

Author(s)

C.Terfve

See Also

findNONC, readSIF

Examples

data(CNOlistToy,package="CellNOptR")
data(ToyModel,package="CellNOptR")
indicesToy<-indexFinder(CNOlistToy,ToyModel,verbose=FALSE)
ToyNCNOindices<-findNONC(ToyModel,indicesToy,verbose=FALSE)
ToyNCNOcut<-cutNONC(ToyModel,ToyNCNOindices)

saezlab/CellNOptR documentation built on April 16, 2024, 5:21 a.m.