mapDDN2model: Integrate data-drive network with the model

In saezlab/CellNOpt-Feeder: Integration of CellNOptR to add missing links

Description

This function integrates the data-driven network (in sif format) with the network encoded in the model (generally derived from prior knowledge), adding links that are missing.

Usage

mapDDN2model(DDN,model,CNOlist,allInter=TRUE)

Arguments

DDN	a sif file encoding a data-driven network, as created by Binference or MIinference
model	a model list, as created by readSif
CNOlist	a CNOlist, as created by makeCNOlist
allInter	one new link in the network can correspond to more links in the model, set it to TRUE if you want to add all possible links, FALSE to add only one link, default is TRUE

Details

The function receives as input a sif file with the data-driven network, as created by Binference or MIinference, and integrates it with the model, returning a new model with the integrated links.

Value

a new Model with the integrated links and an additional field:

indexIntegr

a vector with the indexes of the integrated links

Author(s)

F.Eduati

See Also

readSif, readMIDAS, Binference, MIinference

Examples

data(CNOlistDREAM,package="CellNOptR")
data(DreamModel,package="CellNOptR")
model<-preprocessing(data=CNOlistDREAM, model=DreamModel)

## Not run: 
DDN<-Binference(CNOlistDREAM, tempCheckOrders=10, maxIter=100,
                filename="BAYESIAN")

modelIntegr<-mapDDN2model(DDN=DDN,model=model,CNOlist=CNOlistDREAM)
 

## End(Not run)

saezlab/CellNOpt-Feeder documentation built on Jan. 23, 2020, 2:36 p.m.