create_binaries {CellNOptR}R Documentation

Defining the set of binary variables for the ILP implementation of CellNOptR.

Description

This function takes as input the model and data in a CNOlist object in order to define the set of binary variablese.

Usage

create_binaries <- function(model, 
                            midas, 
                            numberOfExperiments, 
                            y_vector)

Arguments

model

the model

midas

the midas table

numberOfExperiments

the number of experimental conditions

y_vector

the variables for each interaction in the PKN

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 1.38.0 Index]