indexFinder


a CNOlist structure, as produced by makeCNOlist


CNOlist


a model structure, as produced by readSIF


model


do you want information about the cues and signals identities printed on the screen? Default if false but we would advise to set it to true when the function is called for the first time.


verbose


This function finds the indices, in the model fields, of the species that are measured/inhibited/stimulated. It looks for their position in model$namesSpecies which has the same order as the rows of interMat and notMat, and therefore these indexes can be used there as well.


This package does optimisation of boolean logic networks of signalling pathways based on a previous knowledge network and a set of data upon perturbation of the nodes in the network.

T Cokelaer

CellNOptR

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

indexFinder function

a CNOlist structure, as produced by makeCNOlist

a model structure, as produced by readSIF

do you want information about the cues and signals identities printed on the screen? Default if false but we would advise to set it to true when the function is called for the first time.

This function finds the indices, in the model fields, of the species that are measured/inhibited/stimulated. It looks for their position in model$namesSpecies which has the same order as the rows of interMat and notMat, and therefore these indexes can be used there as well.

Finds the indices, in the model fields, of the species that are measured/inhibited/stimulated

vector of indices of the measured species

signals

vector of indices of the stimulated species

stimulated

vector of indices of the inhibited species

indexFinder: Finds the indices, in the model fields, of the species that are measured/inhibited/stimulated

Description

Usage

Arguments

Value

See Also

Examples