Index

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__eq__() (bayflux.core.EMU method) (bayflux.core.emus.EMU method) (bayflux.EMU method) __getitem__() (bayflux.core.fluxes.FluxVector method) (bayflux.core.FluxVector method) (bayflux.FluxVector method) __hash__() (bayflux.core.EMU method) (bayflux.core.emus.EMU method) (bayflux.EMU method) __ne__() (bayflux.core.EMU method) (bayflux.core.emus.EMU method) (bayflux.EMU method) __repr__() (bayflux.AtomTransition method) (bayflux.core.AtomTransition method) (bayflux.core.EMU method) (bayflux.core.emus.EMU method) (bayflux.core.emus.EMUTransition method) (bayflux.core.EMUTransition method) (bayflux.core.fluxes.FluxVector method) (bayflux.core.FluxVector method) (bayflux.core.MassDistribution method) (bayflux.core.massDistribution.MassDistribution method) (bayflux.core.reactionNetwork.AtomTransition method) (bayflux.EMU method) (bayflux.EMUTransition method) (bayflux.FluxVector method) (bayflux.MassDistribution method)

__version__ (in module bayflux) _identifyIdenticalEMUs() (in module bayflux.core.emus) _repr_html_() (bayflux.core.EnhancedReaction method) (bayflux.core.fluxes.FluxVector method) (bayflux.core.FluxVector method) (bayflux.core.reactionNetwork.EnhancedReaction method) (bayflux.EnhancedReaction method) (bayflux.FluxVector method) _traceReplacement() (in module bayflux.core.emus)

A

AtomTransition (class in bayflux) (class in bayflux.core) (class in bayflux.core.reactionNetwork)

B

bayflux module bayflux.core module bayflux.core.commandLine module bayflux.core.emus module

bayflux.core.fluxes module bayflux.core.massDistribution module bayflux.core.reactionNetwork module

C

compileEMUTransitionList() (in module bayflux) (in module bayflux.core) (in module bayflux.core.emus) compileMatrixY() (in module bayflux) (in module bayflux.core) (in module bayflux.core.emus) constructMatrixCoords() (in module bayflux) (in module bayflux.core) (in module bayflux.core.emus)

constructZeroMatrices() (in module bayflux) (in module bayflux.core) (in module bayflux.core.emus) copy() (bayflux.core.emus.EMUTransition method) (bayflux.core.EMUTransition method) (bayflux.core.ReactionNetwork method) (bayflux.core.reactionNetwork.ReactionNetwork method) (bayflux.EMUTransition method) (bayflux.ReactionNetwork method)

E

EMU (class in bayflux) (class in bayflux.core) (class in bayflux.core.emus) emuCompile() (in module bayflux) (in module bayflux.core) (in module bayflux.core.emus) emuDecomposition() (in module bayflux) (in module bayflux.core) (in module bayflux.core.emus) EMUsizes() (in module bayflux) (in module bayflux.core) (in module bayflux.core.emus) EMUTransition (class in bayflux) (class in bayflux.core) (class in bayflux.core.emus)

EnhancedReaction (class in bayflux) (class in bayflux.core) (class in bayflux.core.reactionNetwork) executeCompiledEMUTransitionList() (in module bayflux) (in module bayflux.core) (in module bayflux.core.emus) executeCompiledMatrixY() (in module bayflux) (in module bayflux.core) (in module bayflux.core.emus) extractSubstrateEMU() (in module bayflux) (in module bayflux.core) (in module bayflux.core.emus)

F

findProducingEMUTransitions() (in module bayflux) (in module bayflux.core) (in module bayflux.core.emus) findProducingReactions() (in module bayflux) (in module bayflux.core) (in module bayflux.core.emus)

FluxVector (class in bayflux) (class in bayflux.core) (class in bayflux.core.fluxes)

M

main() (in module bayflux.core.commandLine) MassDistribution (class in bayflux) (class in bayflux.core) (class in bayflux.core.massDistribution) mergeDuplicates() (in module bayflux) (in module bayflux.core) (in module bayflux.core.emus)

module bayflux bayflux.core bayflux.core.commandLine bayflux.core.emus bayflux.core.fluxes bayflux.core.massDistribution bayflux.core.reactionNetwork

P

pruneTransitionList() (in module bayflux) (in module bayflux.core) (in module bayflux.core.emus)

R

ReactionNetwork (class in bayflux) (class in bayflux.core) (class in bayflux.core.reactionNetwork) readAtomTransitions() (bayflux.core.ReactionNetwork method) (bayflux.core.reactionNetwork.ReactionNetwork method) (bayflux.ReactionNetwork method) readFluxConstraints() (bayflux.core.ReactionNetwork method) (bayflux.core.reactionNetwork.ReactionNetwork method) (bayflux.ReactionNetwork method)

readMassDistribution() (in module bayflux) (in module bayflux.core) (in module bayflux.core.massDistribution) reverse() (bayflux.AtomTransition method) (bayflux.core.AtomTransition method) (bayflux.core.reactionNetwork.AtomTransition method)

S

simulateLabeling() (in module bayflux) (in module bayflux.core) (in module bayflux.core.emus) size() (bayflux.core.EMU method) (bayflux.core.emus.EMU method) (bayflux.EMU method)

splitBySize() (in module bayflux) (in module bayflux.core) (in module bayflux.core.emus)

T

to_Series() (bayflux.core.fluxes.FluxVector method) (bayflux.core.FluxVector method) (bayflux.FluxVector method)

toDF() (bayflux.core.MassDistribution method) (bayflux.core.massDistribution.MassDistribution method) (bayflux.MassDistribution method)

W

writeAtomTransitions() (bayflux.core.ReactionNetwork method) (bayflux.core.reactionNetwork.ReactionNetwork method) (bayflux.ReactionNetwork method) writeFluxConstraints() (bayflux.core.ReactionNetwork method) (bayflux.core.reactionNetwork.ReactionNetwork method) (bayflux.ReactionNetwork method)

writeToFile() (bayflux.core.MassDistribution method) (bayflux.core.massDistribution.MassDistribution method) (bayflux.MassDistribution method)