write_constraints {CellNOptR} | R Documentation

## Writing the set of constraints for the ILP implementation of CellNOptR.

### Description

This function takes as input the integer variables assigned to each of the elements in the network and data in a CNOlist object in order to produce the set of constraints needed to be optimized by the ILP solver.

### Usage

    write_constraints <- function(model,
                                  midasExperimentPart,
                                  midasTreatmentPart,
                                  reaction_sets,
                                  y_vector,
                                  midas,
                                  binary_variables)

### Arguments

`model` | the model
`midasExperimentPart` | the experimental part of CNOlist where data is stored
`midasTreatmentPart` | the treatment part of CNOlist where data is stored
`reaction_sets` | the set of reactions
`y_vector` | the variables for each interaction in the PKN
`midas` | the midas table
`binary_variables` | the set of binary variables

### Author(s)

E Gjerga, H Koch

### References

Alexander Mitsos, Ioannis N. Melas, Paraskeuas Siminelakis, Aikaterini D. Chairakaki, Julio Saez-Rodriguez, and Leonidas G. Alexopoulos. Identifying Drug Effects via Pathway Alterations using an Integer Linear Programming Optimization Formulation on Phosphoproteomic Data. PLoS Comput Biol. 2009 Dec; 5(12): e1000591.

[Package CellNOptR version 1.36.0 Index]