Index

A

analyze_dexom_cluster_results() (in module dexom_python.dexom_cluster_results)

analyze_div_enum_results() (in module dexom_python.enum_functions.enumeration) apply_gpr() (in module dexom_python.gpr_rules)

C

check_model_options() (in module dexom_python.model_functions) combine_solutions() (in module dexom_python.result_functions) create_full_variables() (in module dexom_python.imat) create_icut_constraint() (in module dexom_python.enum_functions.icut)

create_maxdist_constraint() (in module dexom_python.enum_functions.maxdist) create_maxdist_objective() (in module dexom_python.enum_functions.maxdist) create_new_partial_variables() (in module dexom_python.imat) create_partial_variables() (in module dexom_python.imat) create_reaction() (in module dexom_python.toy_models)

D

dagNet() (in module dexom_python.toy_models) dexom_python module dexom_python.dexom_cluster_results module dexom_python.enum_functions module dexom_python.enum_functions.diversity_enum module dexom_python.enum_functions.enumeration module dexom_python.enum_functions.icut module dexom_python.enum_functions.maxdist module dexom_python.enum_functions.rxn_enum module

dexom_python.gpr_rules module dexom_python.imat module dexom_python.main module dexom_python.model_functions module dexom_python.pathway_enrichment module dexom_python.result_functions module dexom_python.toy_models module diversity_enum() (in module dexom_python.enum_functions.diversity_enum)

E

EnumSolution (class in dexom_python.enum_functions.enumeration)

expression2qualitative() (in module dexom_python.gpr_rules)

F

Fischer_groups() (in module dexom_python.pathway_enrichment)

Fisher_pathways() (in module dexom_python.pathway_enrichment)

G

get_all_reactions_from_model() (in module dexom_python.model_functions)

get_recent_solution_and_iteration() (in module dexom_python.enum_functions.enumeration) get_subsystems_from_model() (in module dexom_python.model_functions)

I

icut() (in module dexom_python.enum_functions.icut)

imat() (in module dexom_python.imat)

L

load_reaction_weights() (in module dexom_python.model_functions)

M

maxdist() (in module dexom_python.enum_functions.maxdist) module dexom_python dexom_python.dexom_cluster_results dexom_python.enum_functions dexom_python.enum_functions.diversity_enum dexom_python.enum_functions.enumeration dexom_python.enum_functions.icut dexom_python.enum_functions.maxdist dexom_python.enum_functions.rxn_enum dexom_python.gpr_rules dexom_python.imat dexom_python.main dexom_python.model_functions dexom_python.pathway_enrichment dexom_python.result_functions dexom_python.toy_models

P

plot_Fisher_pathways() (in module dexom_python.pathway_enrichment)

plot_pca() (in module dexom_python.result_functions) prepare_expr_split_gen_list() (in module dexom_python.gpr_rules)

R

r13m10() (in module dexom_python.toy_models) read_model() (in module dexom_python.model_functions) read_solution() (in module dexom_python.result_functions)

replace_MulMax_AddMin() (in module dexom_python.gpr_rules) rxn_enum() (in module dexom_python.enum_functions.rxn_enum) rxn_enum_single_loop() (in module dexom_python.enum_functions.rxn_enum) RxnEnumSolution (class in dexom_python.enum_functions.rxn_enum)

S

save_reaction_weights() (in module dexom_python.model_functions)

small4M() (in module dexom_python.toy_models) small4S() (in module dexom_python.toy_models)

W

write_batch_script1() (in module dexom_python.enum_functions.enumeration) write_batch_script2() (in module dexom_python.enum_functions.enumeration)

write_batch_script_divenum() (in module dexom_python.enum_functions.enumeration) write_rxn_enum_script() (in module dexom_python.enum_functions.enumeration) write_solution() (in module dexom_python.result_functions)