CellNOptR: createAndRunILP – R documentation

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createAndRunILP

Creating and running the ILP problem.

Description

This function takes as an input the cno inputs (model + data) together with CPLEX parameters and then solves the ILP problem.

Usage

createAndRunILP <- function(model = model, 
                            midas = midas, 
                            cnolist = cnolist, 
                            accountForModelSize = accountForModelSize, 
                            sizeFac = sizeFac, 
                            source_path = source_path, 
                            mipGap = mipGap, 
                            relGap = relGap, 
                            timelimit = timelimit,
                            cplexPath = cplexPath, 
                            method = method, 
                            numSolutions = numSolutions, 
                            limitPop = limitPop, 
                            poolIntensity = poolIntensity, 
                            poolReplace = poolReplace)

Arguments

`model`	the model
`midas`	the midas table
`cnolist`	the cnolist object
`accountForModelSize`	the verbose parameter whether to account for model size
`sizeFac`	the size penalty factor
`source_path`	the source path
`mipGap`	the mipgap
`relGap`	the relGap
`timelimit`	the timelimit
`cplexPath`	the cplex solver path
`method`	the optimization method (quadratic/linear)
`numSolutions`	the number of desired solutions
`limitPop`	the limitPop
`poolIntensity`	the poolIntensity
`poolReplace`	the poolReplace

Author(s)

E Gjerga, H Koch

CellNOptR

Training of boolean logic models of signalling networks using prior knowledge networks and perturbation data

v1.36.0

GPL-3

Authors

T.Cokelaer, F.Eduati, A.MacNamara, S.Schrier, C.Terfve, E.Gjerga, A.Gabor

Initial release

2018-11-08