Bi-Level Optimization of Metabolic Network Models

Documentation for package ‘GlobalFit’ version 1.0

GlobalFit-package	GlobalFit finds minimal set of network changes for a metabolic network to improve accuracy
additional_biomass_mets	additional_biomass_mets
additional_reactions_list	Example list containing additional reaction
bilevel_optimize	pre und post-processing of optimization
GlobalFit	GlobalFit finds minimal set of network changes for a metabolic network to improve accuracy
influxes	Example list of exchange reactions and corresponding values
initialize-method	~~ Methods for Function 'initialize' ~~
initialize-methods	~~ Methods for Function 'initialize' ~~
not_delete_back	Example vector that specifies reactions that are not allowed to be removed in backward direction.
not_delete_for	Example vector that specifies reactions that are not allowed to be removed in forward direction.
off	Example list of non-growth cases.
on	Example list of growth cases.
opt_net	optimized original example metabolic network model
p_list	Example parameter list for external solver.
remove_biomass_mets	Example list containing biomass metabolites, that are allowed to be removed from the biomass objective function
reverse_reaction_list	Example list of reaction that are allowed to be removed.
sysBiolAlg_GlobalFit-class	Class '"sysBiolAlg_GlobalFit"'
test	Example metabolic network