Transport

findTransRxns(model, inclExc, rxnInds, inclObjAsExc, irrevFlag)[source]

Identifes all transport reactions in a model, which are defined as reactions involved with metabolites in more than 1 compartment

USAGE

[transRxns, nonTransRxns, transRxnsBool] = findTransRxns (model, inclExc, rxnInds, inclObjAsExc, irrevFlag)

INPUT

model – COBRA model structure

OPTIONAL INPUT

  • inclExc – includes exchange reactions as transport = true (Default = false)

  • rxnInds – indices of reactions to test for transport activity. (default = test all columns of model.S)

  • inclObjAsExc – includes objective as an exchange reaction = true - this is passed to findExcRxns. (default = false)

  • irrevFlag – model is irreversible = true - this is passed to findExcRxns. (default=false)

OUTPUTS

  • transRxns – transport reactions in rxnInds

  • nonTransRxns – non-transport reactions in rxnInds

  • transRxnsBool – checks if inclExc or isNonexchangeTransport rxns vector is equal to 1