├── .gitignore ├── LICENSE ├── README.md ├── example ├── Cell.hoc ├── L5PCbiophys3.hoc ├── L5PCtemplate.hoc ├── cell1.asc ├── example.py └── mod │ ├── CaDynamics_E2.mod │ ├── Ca_HVA.mod │ ├── Ca_LVAst.mod │ ├── Ih.mod │ ├── Im.mod │ ├── K_Pst.mod │ ├── K_Tst.mod │ ├── NaTa_t.mod │ ├── NaTs2_t.mod │ ├── Nap_Et2.mod │ ├── SK_E2.mod │ ├── SKv3_1.mod │ └── epsp.mod ├── neuron_reduce ├── __init__.py ├── hoc_funcs.hoc ├── reducing_methods.py └── subtree_reductor_func.py ├── setup.py └── tests ├── TestsFiles ├── L4_LBC_cNAC187_5_for_run │ ├── 1487081844_732516.txt │ ├── biophysics.hoc │ ├── cNAC187_L4_LBC_8e834c24cb.hoc │ ├── mod │ │ ├── .dropbox.attr │ │ ├── Ca.mod │ │ ├── CaDynamics_E2.mod │ │ ├── Ca_LVAst.mod │ │ ├── Ih.mod │ │ ├── Im.mod │ │ ├── K_Pst.mod │ │ ├── K_Tst.mod │ │ ├── NaTa_t.mod │ │ ├── NaTs2_t.mod │ │ ├── Nap_Et2.mod │ │ ├── ProbAMPANMDA_EMS.mod │ │ ├── ProbGABAAB_EMS.mod │ │ ├── SK_E2.mod │ │ └── SKv3_1.mod │ ├── model.hoc │ ├── morphology.hoc │ ├── morphology │ │ └── C230998C-I2_cor_-_Scale_x1.000_y0.950_z1.000_-_Clone_0.asc │ ├── synapses │ │ └── synapses.hoc │ ├── template.hoc │ └── voltage_vectors_for_unit_test_0.txt ├── Test_1 │ ├── 2013_03_06_cell08_876_H41_05_Cell2.ASC │ ├── model.hoc │ ├── origRandomSynapses-10000 │ ├── voltage_vectors_for_unit_test_0.txt │ ├── voltage_vectors_for_unit_test_10.txt │ ├── voltage_vectors_for_unit_test_200.txt │ ├── voltage_vectors_for_unit_test_38.txt │ └── voltage_vectors_for_unit_test_55.txt ├── Test_10_Allen_47804508 │ ├── AllenBiophys.hoc │ ├── AllenTemplate.hoc │ ├── mod │ │ ├── CaDynamics.mod │ │ ├── Ca_HVA.mod │ │ ├── Ca_LVA.mod │ │ ├── Ih.mod │ │ ├── Im.mod │ │ ├── Im_v2.mod │ │ ├── K_P.mod │ │ ├── K_T.mod │ │ ├── Kd.mod │ │ ├── Kv2like.mod │ │ ├── Kv3_1.mod │ │ ├── NaTa.mod │ │ ├── NaTs.mod │ │ ├── NaV.mod │ │ ├── Nap.mod │ │ └── SK.mod │ ├── origRandomSynapses-10000 │ ├── reconstruction.marker │ ├── reconstruction.swc │ └── voltage_vectors_for_unit_test.txt ├── Test_11_Human_L2_3_Eyal │ ├── 2013_03_06_cell08_876_H41_05_Cell2.ASC │ ├── mod │ │ ├── NMDA.mod │ │ ├── kv.mod │ │ └── na.mod │ ├── model.hoc │ ├── model_0603_cell08_cm045.hoc │ ├── origRandomSynapses-10000 │ └── voltage_vectors_for_unit_test.txt ├── Test_12_TPC_L6_Markram │ ├── biophysics.hoc │ ├── cADpyr231_L6_TPC_L1_44f2206f70.hoc │ ├── mod │ │ ├── CaDynamics_E2.mod │ │ ├── Ca_HVA.mod │ │ ├── Ca_LVAst.mod │ │ ├── Ih.mod │ │ ├── Im.mod │ │ ├── K_Pst.mod │ │ ├── K_Tst.mod │ │ ├── NaTa_t.mod │ │ ├── NaTs2_t.mod │ │ ├── Nap_Et2.mod │ │ ├── ProbAMPANMDA_EMS.mod │ │ ├── ProbGABAAB_EMS.mod │ │ ├── SK_E2.mod │ │ └── SKv3_1.mod │ ├── morphology.hoc │ ├── morphology │ │ └── dend-tkb070125a3_ch1_cc2_b_hw_60x_1_axon-tkb060223b3_ch1_cc2_o_ps_60x_1_-_Clone_5.asc │ ├── synapses │ │ ├── analyze.txt │ │ └── synapses.hoc │ ├── synapses_location.txt │ └── voltage_vectors_for_unit_test.txt ├── Test_13_DBC_L4_Markram │ ├── biophysics.hoc │ ├── cNAC187_L4_DBC_23ffe29c8b.hoc │ ├── mod │ │ ├── Ca.mod │ │ ├── CaDynamics_E2.mod │ │ ├── Ca_LVAst.mod │ │ ├── Ih.mod │ │ ├── Im.mod │ │ ├── K_Pst.mod │ │ ├── K_Tst.mod │ │ ├── NaTa_t.mod │ │ ├── NaTs2_t.mod │ │ ├── Nap_Et2.mod │ │ ├── ProbAMPANMDA_EMS.mod │ │ ├── ProbGABAAB_EMS.mod │ │ ├── SK_E2.mod │ │ └── SKv3_1.mod │ ├── morphology.hoc │ ├── morphology │ │ └── C140600C-I1_-_Clone_2.asc │ ├── synapses │ │ ├── analyze.txt │ │ └── synapses.hoc │ ├── synapses_locations.txt │ └── voltage_vectors_for_unit_test.txt ├── Test_2 │ ├── 2013_03_06_cell08_876_H41_05_Cell2.ASC │ ├── model.hoc │ ├── modelwithAxon.hoc │ ├── origRandomSynapses-10000 │ └── voltage_vectors_for_unit_test.txt ├── Test_3 │ ├── Cell.hoc │ ├── TDistFunc.hoc │ ├── cADpyr230_L4_SS_4_dend_C050800E2_cor_axon_C120398A_P2___Scale_x1_000_y1_050_z1_000___Clone_81.hoc │ ├── dend-C050800E2_cor_axon-C120398A-P2_-_Scale_x1.000_y1.050_z1.000_-_Clone_81.asc │ ├── model.hoc │ ├── synapse_fromh5a71075.txt │ └── voltage_vectors_for_unit_test.txt ├── Test_4_LBC_amsalem │ ├── C230300D1.asc │ ├── Cell.hoc │ ├── TDistFunc.hoc │ ├── cNAC187_L23_LBC_3_C230300D1_new_new_fit.hoc │ ├── mod │ │ ├── Ca.mod │ │ ├── CaDynamics_E.mod │ │ ├── CaDynamics_E2.mod │ │ ├── Ca_HVA.mod │ │ ├── Ca_LVA.mod │ │ ├── Ca_LVAs.mod │ │ ├── Ca_LVAst.mod │ │ ├── Ih.mod │ │ ├── Im.mod │ │ ├── Isin.mod │ │ ├── Isinunoisy.mod │ │ ├── Isinunoisy2.mod │ │ ├── IsinunoisyMulti.mod │ │ ├── K_P.mod │ │ ├── K_Ps.mod │ │ ├── K_Pst.mod │ │ ├── K_Ts.mod │ │ ├── K_Tst.mod │ │ ├── KdShu2007.mod │ │ ├── NaTa_t.mod │ │ ├── NaTs2_t.mod │ │ ├── Nap.mod │ │ ├── Nap_E.mod │ │ ├── Nap_Et2.mod │ │ ├── SK_E.mod │ │ ├── SK_E2.mod │ │ ├── SK_S.mod │ │ ├── SKv3_1.mod │ │ ├── SKv3_1t.mod │ │ ├── _calcium.mod │ │ ├── _calcium2.mod │ │ ├── _calciumc_concentration.mod │ │ ├── _iM.mod │ │ ├── calcium_dynamics.mod │ │ ├── calcium_shaul.mod │ │ ├── chanrhod.mod │ │ ├── gap.mod │ │ ├── gap1.mod │ │ ├── gap2.mod │ │ ├── gapmul.mod │ │ ├── halfgap.mod │ │ ├── izap.mod │ │ ├── kv.mod │ │ ├── na.mod │ │ ├── netstimFac.mod │ │ └── ostim.mod │ ├── synapse_fromh5a71075.txt │ └── voltage_vectors_for_unit_test.txt ├── Test_5_Hay_2011 │ ├── Cell.hoc │ ├── L5PCbiophys3.hoc │ ├── L5PCtemplate.hoc │ ├── cell1.asc │ ├── mod │ │ ├── CaDynamics_E2.mod │ │ ├── Ca_HVA.mod │ │ ├── Ca_LVAst.mod │ │ ├── Ih.mod │ │ ├── Im.mod │ │ ├── K_Pst.mod │ │ ├── K_Tst.mod │ │ ├── NaTa_t.mod │ │ ├── NaTs2_t.mod │ │ ├── Nap_Et2.mod │ │ ├── SK_E2.mod │ │ ├── SKv3_1.mod │ │ └── epsp.mod │ ├── origRandomSynapses-10000 │ └── voltage_vectors_for_unit_test.txt ├── Test_7_Almog │ ├── 1487081844_732516.txt │ ├── A140612_1.hoc │ ├── best.params │ ├── mod │ │ ├── BK.mod │ │ ├── SK.mod │ │ ├── ca_h.mod │ │ ├── ca_r.mod │ │ ├── cad.mod │ │ ├── epsp.mod │ │ ├── ih.mod │ │ ├── kfast.mod │ │ ├── kslow.mod │ │ └── na.mod │ ├── origRandomSynapses-10000 │ └── voltage_vectors_for_unit_test_0.txt ├── Test_8_C1_Marasco │ ├── 1487081844_732516.txt │ ├── Morphology_replace_user05.py │ ├── geo5038801mod.hoc │ ├── geo5038801modMod.hoc │ ├── mod │ │ ├── distr.mod │ │ ├── h.mod │ │ ├── kadist.mod │ │ ├── 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