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java.lang.Objectsbrt.kernel.fba.comp.FluxCapComputer
public class FluxCapComputer
This class is used to compute flux caps for use in Mahadevan-Schilling flux interval computations. A flux cap is a linear combination of fluxes that can be used to cap, or bound, an unbound flux.
Constructor Summary | |
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FluxCapComputer(IrrevRxnFluxome fluxome,
java.util.Collection<LinearComb<java.lang.String>> allCycles)
Constructs a new flux cap computer from the cycles contained in the provided fluxome. |
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FluxCapComputer(IrrevRxnFluxome fluxome,
DoubleMatrix<?,java.lang.String> cycleMatrix)
Constructs a new flux cap computer from the cycles contained in the provided fluxome. |
Method Summary | |
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java.util.Map<java.lang.String,java.util.Set<LinearComb<java.lang.String>>> |
getFluxCaps()
Computes and returns all flux caps. |
IrrevRxnFluxome |
getFluxome()
Returns the fluxome for which flux caps are computed. |
ProgressMonitor |
getProgress()
Returns a progress monitor for this flux cap computer. |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Constructor Detail |
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public FluxCapComputer(IrrevRxnFluxome fluxome, DoubleMatrix<?,java.lang.String> cycleMatrix)
fluxome
- the fluxome for which flux caps will be computed.cycleMatrix
- the collection of all cycles in the
provided fluxome.public FluxCapComputer(IrrevRxnFluxome fluxome, java.util.Collection<LinearComb<java.lang.String>> allCycles)
fluxome
- the fluxome for which flux caps will be computed.allCycles
- the collection of all cycles in the
provided fluxome as linear combinations.Method Detail |
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public ProgressMonitor getProgress()
public IrrevRxnFluxome getFluxome()
public java.util.Map<java.lang.String,java.util.Set<LinearComb<java.lang.String>>> getFluxCaps()
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