Index

_

__GAPSCACHE__ (in module gempipe.interface.gaps)

A

add_demand() (in module gempipe.interface.gaps)

add_metabolite() (in module gempipe.interface.gaps) add_reaction() (in module gempipe.interface.gaps)

B

biolog_preview() (in module gempipe.interface.gaps)

C

can_synth() (in module gempipe.interface.gaps) check_artificial_atoms() (in module gempipe.interface.sanity) check_charge_unbalances() (in module gempipe.interface.sanity) check_constrained_metabolic() (in module gempipe.interface.sanity) check_demands() (in module gempipe.interface.sanity) check_exr_notation() (in module gempipe.interface.sanity)

check_mass_unbalances() (in module gempipe.interface.sanity) check_missing_charges() (in module gempipe.interface.sanity) check_missing_formulas() (in module gempipe.interface.sanity) check_reactants() (in module gempipe.interface.gaps) check_sinks() (in module gempipe.interface.sanity) check_sinks_demands() (in module gempipe.interface.sanity) close_boundaries() (in module gempipe.interface.sanity)

D

discriminant_feat() (in module gempipe.interface.clusters)

G

gempipe.interface module gempipe.interface.clusters module gempipe.interface.gaps module gempipe.interface.medium module

gempipe.interface.sanity module get_biolog_mappings() (in module gempipe.interface.gaps) get_objectives() (in module gempipe.interface.gaps) get_solver() (in module gempipe.interface.gaps) get_unconstrained_bounds() (in module gempipe.interface.sanity) get_universe() (in module gempipe.interface.gaps)

H

heatmap_multilayer() (in module gempipe.interface.clusters)

I

import_from_universe() (in module gempipe.interface.gaps)

initialize() (in module gempipe.interface.gaps)

M

module gempipe.interface gempipe.interface.clusters gempipe.interface.gaps gempipe.interface.medium gempipe.interface.sanity

P

perform_gapfilling() (in module gempipe.interface.gaps)

Q

query_pam() (in module gempipe.interface.gaps)

R

remove_EX_annots() (in module gempipe.interface.sanity) remove_rids() (in module gempipe.interface.gaps)

reset_growth_env() (in module gempipe.interface.medium) reset_unconstrained_bounds() (in module gempipe.interface.sanity)

S

sanity_report() (in module gempipe.interface.sanity) search_biomass() (in module gempipe.interface.sanity) search_similar() (in module gempipe.interface.gaps) sensitivity_analysis() (in module gempipe.interface.gaps)

set_bounded_secretions() (in module gempipe.interface.medium) set_bounded_uptakes() (in module gempipe.interface.medium) set_unbounded_exchanges() (in module gempipe.interface.medium) silhouette_analysis() (in module gempipe.interface.clusters) ss_preview() (in module gempipe.interface.gaps)

V

verify_egc() (in module gempipe.interface.sanity)

verify_egc_all() (in module gempipe.interface.sanity)