computeScoreFuzzy


a CNOlist on which the score is based (based on valueSignals[[2]], i.e. data at
t1)


CNOlist

model


a list that contains additional fields for the simulator, as created by prep4sim
applied to the model above


simList


a list of indexes of species stimulated/inhibited/signals, as produced by
indexfinder applied on the model and CNOlist above


indexList

list of parameters. See <a rd-options="" href="/link/defaultParametersFuzzy?package=CNORfuzzy&version=1.14.0" data-mini-rdoc="CNORfuzzy::defaultParametersFuzzy">defaultParametersFuzzy</a>

paramsList


        a bitstring of the same size as the number of reactions in the model above
    

intString


    the scaling factor for the size term in the objective function, default to 0.0001
    

sizeFac


    the scaling factor for the NA term in the objective function, default to 1    
    

NAFac


compute and return score of a model (cut using a bitstring).


This package is an extension to CellNOptR.  It contains
additional functionality needed to simulate and train a prior
knowledge network to experimental data using constrained fuzzy
logic (cFL, rather than Boolean logic as is the case in
CellNOptR).  Additionally, this package will contain functions
to use for the compilation of multiple optimization results
(either Boolean or cFL).

T Cokelaer

CNORfuzzy

Addon to CellNOptR: Fuzzy Logic

computeScoreFuzzy function

a CNOlist on which the score is based (based on valueSignals[[2]], i.e. data at
t1)

a list that contains additional fields for the simulator, as created by prep4sim
applied to the model above

a list of indexes of species stimulated/inhibited/signals, as produced by
indexfinder applied on the model and CNOlist above

list of parameters. See <a href="defaultParametersFuzzy" rd-options="">defaultParametersFuzzy</a>

a bitstring of the same size as the number of reactions in the model above

the scaling factor for the size term in the objective function, default to 0.0001

computeScoreFuzzy: Compute Score of a model compared to the data for a given intString.

Description

Usage

Arguments

Value