Package sbrt.shell.mng.fba

Provides classes and interfaces for creating Flux Balance Analysis process managers.

See:
          Description

Class Summary
BiggSbmlReaderManager This class is used to manage the reading of SBML files obtained from the BiGG Database.
CatalystDeletionManager This class is used to manage FBA catalyst deletion processes.
CdHarFluxVectorManager This class is used to manage FBA coordinate direction hit-and-run random flux vector processes.
CvCatalystDeletionManager This class is used to manage FBA constraint variation-catalyst deletion processes.
CvFbaOptManager This class is used to manage constraint variation-FBA optimization processes.
CvMsFluxIntervalManager This class is used to manage constraint variation-Mahadevan-Schilling flux interval processes.
CvObjectiveFunctionManager This class is used to manage FBA constraint variation-objective function processes.
CvRevRxnFluxIntervalManager This class is used to manage constraint variation-constrained reverse reaction flux interval processes.
CvRxnDeletionManager This class is used to manage FBA constraint variation-reaction deletion processes.
CvSimpleFluxIntervalManager This class is used to manage constraint variation-simple flux interval processes.
ExtremeCurrentManager This class is used to manage FBA extreme current processes.
ExtremeCurrentManager.Rm  
FbaManager This abstract class provides a foundation for Flux Balance Analysis process managers.
FbaOptManager This class is used to manage basic FBA optimization processes.
FbaSolverManager This class is used to manage FBA solver processes.
FluxActivityManager This class is used to manage flux activity processes.
FluxCapManager This class is used to manage flux cap processes.
FluxPlasticityManager This class is used to manage flux plasticity processes.
InitialPointManager This class is used to manage initial point processes.
IntervalVariationManager This abstract class provides utitlity functions for managing flux interval variation processes.
MetatoolInputReaderManager This class is used to manage the conversion of input files for Metatool into SBRT FBA Reaction Files.
MetatoolInputWriterManager This class is used to manage the writing of input files for Metatool.
MetatoolOutputReaderManager This class is used to manage the writing of input files for Metatool.
MsFluxIntervalManager This class is used to manage Mahadevan-Schilling flux interval processes.
MsFluxomeReducerManager This class is used to manage the MS fluxome reduction algorithm.
NetworkInfoManager This class is used to manage fluxome information processes.
ObjectiveFunctionManager This class is used to manage objective function processes.
PalssonSbmlReaderManager This class is used to manage the reading of SBML files obtained from Palsson's website.
RandomConstraintsManager This class is used to manage random constraints generators.
RandomFluxVectorManager This abstract class provides a foundation for random flux vector managers.
RandomObjectiveManager This class is used to manage random objective function generators.
RedundRxnRemoverManager This class is used to manage redundant reaction remover processes.
ReverseRxnFluxIntervalManager This class is used to manage constrained-reverse reaction flux interval processes.
RevRxnBreakerManager This class is used to manage reversible reaction breakers.
RxnDeletionManager This class is used to manage FBA reaction deletion processes.
SimpleFluxIntervalManager This class is used to manage simple flux interval processes.
SimpleRxnFileTransManager This class is used to manage the translation of simple reaction files into Systems Biology Research Tool (SBRT) FBA Reaction Files.
SlpCycleIdManager This class is used to manage steady state cycle identification.
WwFluxomeReducerManager This class is used to manage the WW fluxome reduction algorithm.
 

Package sbrt.shell.mng.fba Description

Provides classes and interfaces for creating Flux Balance Analysis process managers.