Index _ | A | C | D | E | F | G | I | K | L | M | N | O | P | R | S | T | U _ __call__() (FourierQuadrature method) __copy__() (MorphTree method) (STree method) __getitem__() (MorphTree method) (STree method) __hash__() (STree method) __iter__() (MorphTree method) (STree method) __len__() (STree method) __repr__() (STree method) __str__() (STree method) _evaluate_comp_criteria() (MorphTree method) (PhysTree method) _try_name() (MorphTree method) A add_channel_current() (CompartmentTree method) (PhysTree method) add_conc_mech() (CompartmentTree method) (PhysTree method) add_double_exp_current() (NeuronCompartmentTree method) (NeuronSimTree method) add_double_exp_nmda_synapse() (NeuronCompartmentTree method) (NeuronSimTree method) add_double_exp_synapse() (NeuronCompartmentTree method) (NeuronSimTree method) add_exp_synapse() (NeuronCompartmentTree method) (NeuronSimTree method) add_i_clamp() (NeuronCompartmentTree method) (NeuronSimTree method) add_loc() (MorphTree method) add_nmda_synapse() (NeuronCompartmentTree method) (NeuronSimTree method) add_node_with_parent() (STree method) add_node_with_parent_from_index() (STree method) add_ou_clamp() (NeuronCompartmentTree method) (NeuronSimTree method) add_ou_conductance() (NeuronCompartmentTree method) (NeuronSimTree method) add_ou_reversal() (NeuronSimTree method) add_shunt() (NeuronCompartmentTree method) (NeuronSimTree method) add_sin_clamp() (NeuronCompartmentTree method) (NeuronSimTree method) add_v_clamp() (NeuronCompartmentTree method) (NeuronSimTree method) as_computational_tree (MorphTree property) as_original_tree (MorphTree property) as_passive_membrane() (PhysNode method) (PhysTree method) C CachedGreensTree (class in neat) CachedGreensTreeTime (class in neat) CachedSOVTree (class in neat) calc_channel_response_f() (GreensTree method) calc_channel_response_matrix() (GreensTree method) (GreensTreeTime method) calc_channel_response_t() (GreensTreeTime method) calc_compartmentalization() (NET method) calc_conductance_matrix() (CompartmentTree method) calc_e_eq() (EquilibriumTree method) (NeuronSimTree method) calc_eigenvalues() (CompartmentTree method) calc_g_tot() (PhysNode method) calc_i_tot() (PhysNode method) calc_i_z() (NET method) calc_i_z_matrix() (NET method) calc_impedance_matrix() (CompartmentTree method) (GreensTree method) (NET method) (SOVTree method) calc_impulse_response_matrix() (GreensTreeTime method) calc_sov_equations() (SOVTree method) calc_system_matrix() (CompartmentTree method) calc_total_impedance() (NET method) calc_zf() (GreensTree method) calc_zt() (GreensTreeTime method) check_computational_tree_active() (MorphTree method) check_ordered() (STree method) check_passive() (CompartmentFitter method) child_nodes (MorphNode property) clear_locs() (MorphTree method) color_x_axis() (MorphTree method) CompartmentFitter (class in neat) CompartmentTree (class in neat) compute_c() (CompartmentTree method) compute_derivatives() (IonChannel method) compute_derivativesConc() (IonChannel method) compute_fake_geometry() (CompartmentTree method) compute_g_channels() (CompartmentTree method) compute_g_single_channel() (CompartmentTree method) compute_gmc() (CompartmentTree method) compute_lin_conc() (IonChannel method) compute_lin_sum() (IonChannel method) compute_lin_terms() (SOVTree method) compute_linear() (IonChannel method) compute_linear_conc() (IonChannel method) compute_p_open() (IonChannel method) compute_tauinf() (IonChannel method) compute_varinf() (IonChannel method) construct_net() (SOVTree method) convert_fit_arg() (CompartmentFitter method) convert_loc_arg_to_locs() (MorphTree method) convert_node_arg_to_nodes() (MorphTree method) create_compartment_tree() (MorphTree method) create_corresponding_node() (CompartmentTree method) (GreensTree method) (MorphTree method) (NestCompartmentTree method) (NET method) (NeuronCompartmentTree method) (NeuronSimTree method) (SOVTree method) (STree method) create_finite_difference_tree() (PhysTree method) create_new_tree() (MorphTree method) (PhysTree method) create_tree_gf() (CompartmentFitter method) create_tree_sov() (CompartmentFitter method) D degree_of_node() (STree method) delete_model() (NeuronSimTree method) depth_of_node() (STree method) determine_soma_type() (MorphTree method) distances_to_bifurcation() (MorphTree method) distances_to_soma() (MorphTree method) distribute_locs_at_d2s() (MorphTree method) distribute_locs_random() (MorphTree method) distribute_locs_uniform() (MorphTree method) E environment EquilibriumTree (class in neat) extend_with_bifurcation_locs() (MorphTree method) F find_bifurcation_node_from_root() (STree method) find_bifurcation_node_to_root() (STree method) find_in_between_bifurcation_nodes() (STree method) fit_capacitance() (CompartmentFitter method) fit_channels() (CompartmentFitter method) fit_concentration() (CompartmentFitter method) fit_e_eq() (CompartmentFitter method) fit_e_leak() (CompartmentTree method) fit_leak_current() (PhysTree method) fit_leak_only() (CompartmentFitter method) fit_model() (CompartmentFitter method) fit_passive() (CompartmentFitter method) fit_syn_rescale() (CompartmentFitter method) FourierQuadrature (class in neat) ft() (FourierQuadrature method) (Kernel method) ft_inv() (FourierQuadrature method) G gather_nodes() (STree method) get_channels_in_tree() (PhysTree method) get_conc_eq() (CompartmentTree method) get_e_eq() (CompartmentTree method) get_equivalent_locs() (CompartmentTree method) get_important_modes() (SOVTree method) get_kernels() (CompartmentFitter method) get_leaf_loc_idxs() (MorphTree method) get_leaf_loc_node() (NET method) get_leafs() (MorphTree method) (STree method) get_loc_idxs() (NET method) get_loc_idxs_on_node() (MorphTree method) get_loc_idxs_on_nodes() (MorphTree method) get_loc_idxs_on_path() (MorphTree method) get_locs() (MorphTree method) get_mode_importance() (SOVTree method) get_nearest_loc_idxs() (MorphTree method) get_nearest_neighbour_loc_idxs() (MorphTree method) get_nearest_neighbours() (STree method) get_node_indices() (MorphTree method) get_nodes() (MorphTree method) (STree method) get_nodes_from_loc_idxs() (CompartmentTree method) get_nodes_in_apical_subtree() (MorphTree method) get_nodes_in_axonal_subtree() (MorphTree method) get_nodes_in_basal_subtree() (MorphTree method) get_nodes_in_subtree() (STree method) get_reduced_tree() (NET method) get_sub_tree() (STree method) get_x_coords() (MorphTree method) get_x_values() (MorphTree method) GreensNode (class in neat) GreensTree (class in neat) GreensTreeTime (class in neat) I init_model() (NestCompartmentTree method) (NeuronSimTree method) insert_node() (STree method) IonChannel (class in neat) is_leaf() (STree method) is_root() (STree method) K k_bar (Kernel property) Kernel (class in neat) L leafs (MorphTree property) (STree property) M make_x_axis() (MorphTree method) module neat.trees MorphLoc (class in neat) MorphNode (class in neat) MorphTree (class in neat) N neat.trees module NestCompartmentNode (class in neat) NestCompartmentTree (class in neat) NET (class in neat) NETNode (class in neat) NETSim (class in neat.netsim) NeuronCompartmentTree (class in neat) NeuronSimNode (class in neat) NeuronSimTree (class in neat) nodes (MorphTree property) (STree property) O order_of_node() (STree method) P path_between_nodes() (STree method) path_between_nodes_depth_first() (STree method) path_length() (MorphTree method) path_to_root() (STree method) permute_to_locs_idxs() (CompartmentTree method) permute_to_tree_idxs() (CompartmentTree method) PhysNode (class in neat) PhysTree (class in neat) plot_1d() (MorphTree method) plot_2d_morphology() (MorphTree method) plot_dendrogram() (CompartmentTree method) (NET method) plot_kernels() (CompartmentFitter method) plot_morphology_interactive() (MorphTree method) plot_true_d2s() (MorphTree method) R read_swc_tree_from_file() (MorphTree method) remove_comp_tree() (MorphTree method) remove_expansion_points() (CompartmentTree method) (GreensTree method) remove_locs() (MorphTree method) remove_node() (STree method) remove_single_node() (STree method) reset_fit_data() (CompartmentTree method) reset_indices() (MorphTree method) (STree method) root (MorphTree property) (STree property) run() (NeuronSimTree method) run_fit() (CompartmentTree method) S set_comp_tree() (MorphTree method) set_conc_ep() (PhysTree method) set_conc_eq() (CompartmentTree method) set_ctree() (CompartmentFitter method) set_default_params() (IonChannel method) set_default_tree() (MorphTree method) set_e_eq() (CompartmentTree method) (EquilibriumTree method) set_expansion_point() (GreensNode method) set_expansion_points() (CompartmentTree method) set_impedance() (GreensTree method) (GreensTreeTime method) set_impedances_in_tree() (CachedGreensTree method) set_leak_current() (PhysTree method) set_new_loc_idxs() (NET method) set_node_colors() (MorphTree method) set_p3d() (MorphNode method) set_physiology() (PhysTree method) set_rec_locs() (NeuronCompartmentTree method) set_spiketrain() (NeuronSimTree method) set_v_ep() (PhysTree method) sister_leafs() (STree method) soft_remove_node() (STree method) source directory SOVNode (class in neat) SOVTree (class in neat) store_locs() (MorphTree method) STree (class in neat) T t() (Kernel method) U unique_hash() (STree method) unique_locs() (MorphTree method)