Index

A

abs() (simulator.Point method) ActiveChildError (class in simulator) add_branch() (simulator.Front method) add_child() (simulator.Front method) add_neurons() (simulator.Admin_agent method) add_substrate() (simulator.Admin_agent method) (simulator.Constellation method) add_synapse() (simulator.SynFront method)

Admin_agent (class in simulator) alternate_locations() (simulator.Front method) angle_two_dirs() (in module simulator) arc_around() (simulator.Front method) arc_continue() (simulator.Front method) array (simulator.OverflowError attribute) attrib_to_db() (simulator.Admin_agent method) attribute (simulator.OverflowError attribute) average_fronts() (in module simulator)

B

BadChildError (class in simulator) birth (simulator.Front attribute) (simulator.Substrate attribute)

BugError (class in simulator)

C

check_collision() (in module processing) clear_growing() (simulator.Front method) clear_migrating() (simulator.Front method) clear_status1() (simulator.Front method) clear_status2() (simulator.Front method) clear_status3() (simulator.Front method) collider (simulator.CollisionError attribute) CollisionError (class in simulator)

Constellation (class in simulator) constellation (simulator.Admin_agent attribute) coord (simulator.VolumeError attribute) count_descendants() (simulator.Front method) cross() (simulator.Point method) CV_ISI (simulator.Neuron attribute) cycle (simulator.Admin_agent attribute) (simulator.Constellation attribute)

D

data_to_id() (simulator.Constellation method) DataID (class in simulator) death (simulator.Front attribute) destruction() (simulator.Admin_agent method) diff_c (simulator.Substrate attribute)

diff_gradient_to() (in module simulator) disable() (simulator.Front method) dist3D_cyl_to_cyl() (in module simulator) dist3D_point_to_cyl() (in module simulator) distance (simulator.CollisionError attribute) dot() (simulator.Point method)

E

enable() (simulator.Front method) enable_parent() (simulator.Front method) end (simulator.Front attribute)

explanation (simulator.BadChildError attribute) (simulator.BugError attribute) (simulator.SynapseError attribute)

F

firing_rate (simulator.Neuron attribute) flash_front() (simulator.Admin_agent method) Front (class in simulator)

front_by_id() (simulator.Constellation method) front_distance() (simulator.Front method) front_id (simulator.DataID attribute)

G

get_base_name() (simulator.Neuron method) get_branch_name() (simulator.Front method) get_branch_synapses() (simulator.SynFront method) get_children() (simulator.Front method) get_dataid() (simulator.Front method) (simulator.Neuron method) get_fronts() (simulator.Front method) get_id() (simulator.Front method) (simulator.Neuron method) (simulator.Substrate method) get_migration_history() (simulator.Front method) get_name() (simulator.Neuron method) (simulator.Substrate method) get_neighbors() (simulator.Front method)

get_neuron() (simulator.Front method) get_neuron_fronts() (simulator.Front method) (simulator.Neuron method) get_neuron_name() (simulator.Front method) get_neuron_soma() (simulator.Neuron method) get_neuron_type() (simulator.Front method) get_parent() (simulator.Front method) get_soma() (simulator.Front method) get_substrates() (simulator.Front method) get_synapse() (simulator.SynFront method) get_terminals() (simulator.Front method) gid (simulator.GridCompetitionError attribute) go_around() (simulator.Front method) grid_statistics() (simulator.Admin_agent method) GridCompetitionError (class in simulator)

H

has_child_retracted() (simulator.Front method) has_migrated() (simulator.Front method)

has_moved() (simulator.Front method) has_synapse() (simulator.Front method) (simulator.SynFront method)

I

ID (class in simulator) id (simulator.LockError attribute) id_to_data() (simulator.Constellation method) import_simulation() (simulator.Admin_agent method) importable_db (simulator.Admin_agent attribute) in_volume() (simulator.Front method) InsideParentError (class in simulator) is_active() (simulator.Front method) is_ancestor() (simulator.Front method) is_arc() (simulator.Front method) is_child() (simulator.Front method)

is_cylinder() (simulator.Front method) (simulator.Point method) (simulator.Substrate method) is_growing() (simulator.Front method) is_migrating() (simulator.Front method) is_parent() (simulator.Front method) is_postsynaptic() (simulator.SynFront method) is_presynaptic() (simulator.SynFront method) is_retracted() (simulator.Front method) is_status1() (simulator.Front method) is_status2() (simulator.Front method) is_status3() (simulator.Front method)

L

length() (simulator.Front method) (simulator.Point method)

lock() (simulator.Constellation method) LockError (class in simulator) lproc (simulator.LockError attribute)

M

manage_front() (simulator.Front method) message (simulator.TypeError attribute) method (simulator.BugError attribute) (simulator.NotSelfError attribute)

mid() (simulator.Front method) migrate_soma() (simulator.Front method) module processing

N

n_mol (simulator.Substrate attribute) name (simulator.Substrate attribute) nds_children() (in module processing) nds_class() (simulator.Front method) (simulator.Neuron method) (simulator.Point method) (simulator.Substrate method) (simulator.Synapse method) (simulator.SynFront method) nds_compare_files() (in module processing) nds_cycles() (in module processing) nds_dict_to_list() (in module processing) nds_front_id() (in module processing) nds_get_color_dict() (in module processing) nds_interact() (in module processing) nds_list (class in simulator) nds_list_data() (in module processing) nds_movie() (in module processing) nds_neuron() (in module processing) nds_output_data() (in module processing) nds_output_migration() (in module processing) nds_output_neurons() (in module processing)

nds_output_sizes() (in module processing) nds_plot() (in module processing) nds_plot_data() (in module processing) nds_stats() (in module processing) nds_summary() (in module processing) nds_swc_files() (in module processing) nds_version() (in module simulator) Neuron (class in simulator) neuron_by_id() (simulator.Constellation method) neuron_id (simulator.DataID attribute) neuron_type_index() (simulator.Constellation method) neurons_by_front_class() (simulator.Constellation method) neurons_by_name() (simulator.Constellation method) neurons_by_type() (simulator.Constellation method) norm() (simulator.Point method) NotSelfError (class in simulator) NotSomaError (class in simulator) nparray() (simulator.Point method) num_children (simulator.Front attribute) num_fronts (simulator.Neuron attribute) num_retracted (simulator.Neuron attribute) num_synapses (simulator.Neuron attribute)

O

only_first (simulator.CollisionError attribute) only_first_collision (simulator.Constellation attribute) order (simulator.Front attribute)

orig (simulator.Front attribute) (simulator.Substrate attribute) out_volume() (simulator.Point method) OverflowError (class in simulator)

P

path_length (simulator.Front attribute) plot_item() (simulator.Admin_agent method) Point (class in simulator) point_in_volume() (in module processing) point_valid() (simulator.Front method)

post_syn (simulator.Synapse attribute) pre_syn (simulator.Synapse attribute) proc (simulator.LockError attribute) processing module

R

radius (simulator.Front attribute) range (simulator.ValueError attribute) rate (simulator.Substrate attribute)

remove_synapse() (simulator.SynFront method) retract() (simulator.Front method) retract_branch() (simulator.Front method)

S

seed (simulator.Admin_agent attribute) set_branch_name() (simulator.Front method) set_CV_ISI() (simulator.Neuron method) set_firing_rate() (simulator.Neuron method) set_growing() (simulator.Front method) set_migrating() (simulator.Front method) set_status1() (simulator.Front method) set_status2() (simulator.Front method) set_status3() (simulator.Front method) set_weight() (simulator.Synapse method) sim_memory() (simulator.Admin_agent method) sim_statistics() (simulator.Admin_agent method) sim_volume (simulator.Constellation attribute) simulation_loop() (simulator.Admin_agent method)

solve_collision() (simulator.Front method) soma_ID (simulator.Neuron attribute) sphere_interpol() (simulator.Front method) sphere_intersect() (simulator.Front method) sphere_T_points() (simulator.Front method) strip_db_name() (in module processing) Substrate (class in simulator) substrate_by_id() (simulator.Constellation method) surface_point_to() (simulator.Front method) swc_name() (in module simulator) swc_type (simulator.Front attribute) syn_input (simulator.SynFront attribute) Synapse (class in simulator) SynapseError (class in simulator) SynFront (class in simulator)

T

taper() (simulator.Front method) toPol_point() (simulator.Point method)

total_fronts (simulator.Admin_agent attribute) type (simulator.LockError attribute) TypeError (class in simulator)

U

unit_branching_sample() (simulator.Front method) unit_heading_sample() (simulator.Front method) unit_sample_on_circle() (in module simulator)

unit_sample_on_cone() (in module simulator) unit_sample_on_sphere() (in module simulator) unlock() (simulator.Constellation method)

V

value (simulator.ValueError attribute) ValueError (class in simulator)

verbose (simulator.Admin_agent attribute) (simulator.Constellation attribute) VolumeError (class in simulator)

W

weight (simulator.Synapse attribute)

wiggle() (simulator.Point method) wiggle_front() (simulator.Front method)

X

x (simulator.Point attribute)

Y

y (simulator.Point attribute)

Z

z (simulator.Point attribute)