Prepare a model for simulation
Adds to the model some fields that are used by the simulation engine
prep4sim(model)
model |
a model list, as output by readSIF, normally pre-processed but that is not a requirement of this function |
This adds fields that are necessary for the simulation engine in a version that is extensible for constrained Fuzzy logic extension of the methods applied here (in development).
this function returns a list with fields:
finalCube |
stores, for each reac(row) the location of its inputs (col) |
ixNeg |
stores, for each reac(row) and each input (col) whether it is a negative input |
ignoreCube |
logical matrix of the same size as the 2 above, that tells whether the particular cell is filled or not |
maxIx |
row vector that stores, for each reac, the location of its output |
modelname |
stores the name of the model from which these fields were derived |
maxInput |
stores the max number of inputs observed in the model for a single reaction |
For internal usage since version 1.3.28
C. Terfve, T. Cokelaer
data(ToyModel,package="CellNOptR") ToyFields4Sim<-prep4sim(ToyModel)
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