Index

A

add_caspase8() (in module earm.tests.test_albeck_models) albeck_11b() (in module earm.albeck_modules) albeck_11c() (in module earm.albeck_modules) albeck_11d() (in module earm.albeck_modules) albeck_11e() (in module earm.albeck_modules)

albeck_11f() (in module earm.albeck_modules) all_monomers() (in module earm.albeck_modules) apaf1_to_parp_monomers() (in module earm.albeck_modules) assemble_pore_sequential() (in module earm.shared) assemble_pore_spontaneous() (in module earm.shared)

B

Bax_tetramerizes() (in module earm.albeck_modules) Bcl2_binds_Bax1_Bax2_and_Bax4() (in module earm.albeck_modules)

bind() (in module earm.shared) bind_table() (in module earm.shared)

C

catalyze() (in module earm.shared) catalyze_convert() (in module earm.shared) check_generate_network() (in module earm.tests.test_models_net_gen) chen_biophys_j() (in module earm.shen_modules) chen_febs_direct() (in module earm.shen_modules) chen_febs_indirect() (in module earm.shen_modules)

convert_odes() (in module earm.tests.test_shen_models) convert_parameters() (in module earm.tests.test_shen_models) cui_direct() (in module earm.shen_modules) cui_direct1() (in module earm.shen_modules) cui_direct2() (in module earm.shen_modules)

D

declare_initial_conditions() (in module earm.lopez_modules) direct() (in module earm.lopez_modules)

displace() (in module earm.shared) displace_reversibly() (in module earm.shared)

E

earm.albeck_11b (module) earm.albeck_11c (module) earm.albeck_11d (module) earm.albeck_11e (module) earm.albeck_11f (module) earm.albeck_modules (module) earm.chen_biophys_j (module) earm.chen_febs_direct (module) earm.chen_febs_indirect (module) earm.cui_direct (module) earm.cui_direct1 (module) earm.cui_direct2 (module) earm.howells (module) earm.lopez_direct (module) earm.lopez_embedded (module) earm.lopez_indirect (module) earm.lopez_modules (module) earm.mito.albeck_11b (module) earm.mito.albeck_11c (module) earm.mito.albeck_11d (module)

earm.mito.albeck_11e (module) earm.mito.albeck_11f (module) earm.mito.chen_biophys_j (module) earm.mito.chen_febs_direct (module) earm.mito.chen_febs_indirect (module) earm.mito.cui_direct (module) earm.mito.cui_direct1 (module) earm.mito.cui_direct2 (module) earm.mito.howells (module) earm.mito.lopez_direct (module) earm.mito.lopez_embedded (module) earm.mito.lopez_indirect (module) earm.shared (module) earm.shen_modules (module) earm.tests.test_albeck_models (module) earm.tests.test_lopez_models (module) earm.tests.test_models_net_gen (module) earm.tests.test_shen_models (module) effectors_bind_anti_apoptotics() (in module earm.lopez_modules) embedded() (in module earm.lopez_modules)

H

howells() (in module earm.shen_modules)

I

indirect() (in module earm.lopez_modules)

L

ligand_to_c8_monomers() (in module earm.albeck_modules)

lopez_pore_formation() (in module earm.lopez_modules)

M

matches_figure() (in module earm.tests.test_albeck_models)

momp_monomers() (in module earm.albeck_modules) (in module earm.lopez_modules) (in module earm.shen_modules)

O

observables() (in module earm.shared) odes_match() (in module earm.tests.test_shen_models)

one_step_conv() (in module earm.shared)

P

pickle_lopez_models() (in module earm.tests.test_lopez_models) plot_figure() (in module earm.tests.test_albeck_models) pore_bind() (in module earm.shared)

pore_to_parp() (in module earm.albeck_modules) pore_transport() (in module earm.shared)

R

rec_to_bid() (in module earm.albeck_modules)

run_figure_sim() (in module earm.tests.test_albeck_models)

S

sensitizers_bind_anti_apoptotics() (in module earm.lopez_modules)

shen_pore_transport() (in module earm.shen_modules)

T

tBid_activates_Bax_and_Bak() (in module earm.lopez_modules) tBid_binds_all_anti_apoptotics() (in module earm.lopez_modules) test_figure() (earm.tests.test_albeck_models.TestAlbeck11b method) (earm.tests.test_albeck_models.TestAlbeck11c method) (earm.tests.test_albeck_models.TestAlbeck11d method) (earm.tests.test_albeck_models.TestAlbeck11e method) (earm.tests.test_albeck_models.TestAlbeck11f method) test_generate_network() (in module earm.tests.test_models_net_gen) test_lopez_direct() (in module earm.tests.test_lopez_models) test_lopez_embedded() (in module earm.tests.test_lopez_models) test_lopez_indirect() (in module earm.tests.test_lopez_models) test_odes() (earm.tests.test_shen_models.TestChenBiophysJ method) (earm.tests.test_shen_models.TestChenFEBS_Direct method) (earm.tests.test_shen_models.TestChenFEBS_Indirect method) (earm.tests.test_shen_models.TestCui_Direct method) (earm.tests.test_shen_models.TestCui_Direct1 method) (earm.tests.test_shen_models.TestCui_Direct2 method) (earm.tests.test_shen_models.TestHowells method) test_parameters() (earm.tests.test_shen_models.TestChenBiophysJ method) (earm.tests.test_shen_models.TestHowells method) TestAlbeck11b (class in earm.tests.test_albeck_models) TestAlbeck11c (class in earm.tests.test_albeck_models)

TestAlbeck11d (class in earm.tests.test_albeck_models) TestAlbeck11e (class in earm.tests.test_albeck_models) TestAlbeck11f (class in earm.tests.test_albeck_models) TestChenBiophysJ (class in earm.tests.test_shen_models) TestChenFEBS_Direct (class in earm.tests.test_shen_models) TestChenFEBS_Indirect (class in earm.tests.test_shen_models) TestCui_Direct (class in earm.tests.test_shen_models) TestCui_Direct1 (class in earm.tests.test_shen_models) TestCui_Direct2 (class in earm.tests.test_shen_models) TestHowells (class in earm.tests.test_shen_models) translocate_tBid_Bax_BclxL() (in module earm.lopez_modules)