alternative pathways	metab_connect
BFD_Processor	BFDProcessor
bypass reactions for metabolites	metab_connect
BYPASS_REACTIONS_SUBSTRATE	metab_connect
change objective	change_obj_function
Change Reaction Bounds	change_rxn_bounds
CHANGE_OBJ_FUNCTION	change_obj_function
CHANGE_RXN_BOUNDS	change_rxn_bounds
comparison of single deletion flux distributions	sing_del_flxme
degree-measure	deg_meas
DEGREE_MEASURE	deg_meas
double knockout	Exhaustive_double_deletion
double knockout result processor	BFDProcessor
double synthetic lethality	Exhaustive_double_deletion
Ecoli_core	Ecoli_core
Ec_iAF1260_flux1	Ec_iAF1260_flux1
Ec_iAF1260_flux2	Ec_iAF1260_flux2
Ec_iJR904	Ec_iJR904
Exhaustive_double_deletion	Exhaustive_double_deletion
Exhaustive_single_deletion	Exhaustive_single_deletion
FBA_solve	FBA_solve
flux distribution comparisons	fdiff
Flux Variability Analysis	fva
fluxome graphs	sing_del_flxme
flux_difference_plotter	fdiff
Flux_Ranger	flux_ranger
FLUX_VAR_ANALYSIS	fva
FVA_robustness	fva_robustness
gene deletion	Gene_del
genetic mutants	Gene_del
Gene_del	Gene_del
H_pylori_iIT341	H_pylori_iIT341
H_sapien_Recon1	H_sapien_Recon1
in-degree	deg_meas
M_barkeri_iAF629	M_barkeri_iAF629
M_tb_iNJ661	M_tb_iNJ661
Objective function	View_objective
objective function	change_obj_function
out-degree	deg_meas
parallel multi-core simulation	Exhaustive_double_deletion
PERTURBATION_analysis	PERTURBATION_analysis
phenotypic phase plane analysis	PHPP
PHPP	PHPP
ramp-down	PERTURBATION_analysis
ramp-up	PERTURBATION_analysis
robustness analysis	PERTURBATION_analysis
Robustness analysis using FVA	fva_robustness
SBML	Sybil_2_FBA_obj
Search-metabolite	metab_srch
Search-reaction	rxn_srch
SEARCH_metabolite	metab_srch
SEARCH_reaction	rxn_srch
single knockouts	Exhaustive_single_deletion
SINGLE_DEL_FLUXOME	sing_del_flxme
solve FBA problem	FBA_solve
Sybil_2_FBA_obj	Sybil_2_FBA_obj
Sybil_S4_object	Sybil_2_FBA_obj
S_aureus_iSB619	S_aureus_iSB619
S_cerevisiae_IND750	S_cerevisiae_IND750
View_objective	View_objective
