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Packages that use sbrt.kernel.fba.comp | |
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sbrt.kernel.fba.comp | Provides classes and interfaces for performing Flux Balance Analysis computations. |
sbrt.kernel.fba.proc | Provides classes and interfaces for executing Flux Balance Analysis processes. |
sbrt.shell.io.fba | Provides classes and interfaces for reading and writing files relevant to Flux Balance Analysis. |
sbrt.shell.mng.fba | Provides classes and interfaces for creating Flux Balance Analysis process managers. |
Classes in sbrt.kernel.fba.comp used by sbrt.kernel.fba.comp | |
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AbstractCvComputer
This abstract class is a skeleton implementation of FluxCvComputer. |
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AbstractFluxIntervalComputer
This abstract class is a skeleton implemenation of FluxIntervalComputer. |
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CdHarFluxComp.Results
This class is used to represent the results of a coordinate-direction hit-and-run flux vector computation. |
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CycleComputer
This interface is used to represent algorithms for identifying steady state cycles in stoichiometric networks. |
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ExtremeCurrentComputer
This interface is used to represent extreme current computers. |
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FbaOptimizer
This class is the workhorse of all Flux Balance Analysis optimizations. |
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FbaOptimizer.Results
This class is used to store the results of an FBA optimization problem. |
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FluxCvComputer
This interface is used to represent a flux constraint variation computer. |
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FluxIntervalComputer
This interface is used to represent flux interval computers. |
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FluxomeReducer
This interface is used to represent algorithms that reduce the size of fluxomes. |
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InitialPointComputer.Results
This class is used to represent the results of the initial point computation. |
Classes in sbrt.kernel.fba.comp used by sbrt.kernel.fba.proc | |
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CdHarFluxComp
This class is used to compute randomly distributed vectors within flux space. |
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CdHarFluxComp.Results
This class is used to represent the results of a coordinate-direction hit-and-run flux vector computation. |
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CycleComputer
This interface is used to represent algorithms for identifying steady state cycles in stoichiometric networks. |
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ExtremeCurrentComputer
This interface is used to represent extreme current computers. |
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FbaOptimizer
This class is the workhorse of all Flux Balance Analysis optimizations. |
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FbaOptimizer.Results
This class is used to store the results of an FBA optimization problem. |
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FluxCapComputer
This class is used to compute flux caps for use in Mahadevan-Schilling flux interval computations. |
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FluxCvComputer
This interface is used to represent a flux constraint variation computer. |
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FluxIntervalComputer
This interface is used to represent flux interval computers. |
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FluxomeReducer
This interface is used to represent algorithms that reduce the size of fluxomes. |
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InitialPointComputer
This class is used to compute initial points for coordinate-direction hit-and-run random flux vector algorithms. |
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InitialPointComputer.Results
This class is used to represent the results of the initial point computation. |
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RxnDeletionComputer
This class is used to compute the effect of deleting reactions in a fluxome. |
Classes in sbrt.kernel.fba.comp used by sbrt.shell.io.fba | |
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FbaOptimizer.Results
This class is used to store the results of an FBA optimization problem. |
Classes in sbrt.kernel.fba.comp used by sbrt.shell.mng.fba | |
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CdHarFluxComp
This class is used to compute randomly distributed vectors within flux space. |
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ExtremeCurrentComputer
This interface is used to represent extreme current computers. |
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FbaOptException
This class is used to indicate that an optimal solution could not be found or does not exist. |
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FbaOptimizer
This class is the workhorse of all Flux Balance Analysis optimizations. |
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FbaOptimizer.Results
This class is used to store the results of an FBA optimization problem. |
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FluxRangeException
This class is used to indicate that the range of a flux interval has exceeded a defined cutoff value. |
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InvalidFluxVectorException
This class is used to indicate that a flux vector is invalid. |
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MsFluxIntervalComputer
This class is used to compute Mahadevan-Schilling flux intervals. |
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ReverseRxnIntervalComp
This class is used to compute flux intervals while constraining the fluxes of reverse reactions to their minimum. |
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RxnDeletionComputer
This class is used to compute the effect of deleting reactions in a fluxome. |
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SimpleFluxIntervalComputer
This class is used to compute flux intervals in the simplest possible way. |
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