NNGT
1.0
Modules
Index
GitHub
Site
User Documentation
Installation
Dependencies
Simple install
Local install
Configuration
Using NEST
Intro & user manual
Yet another graph library?
Description
Tutorial
NNGT properties and configuration
The
Graph
object
Generating and analyzing more complex networks
Using random numbers
Complex populations:
NeuralGroup
and
NeuralPop
Real neuronal culture and NEST interaction: the
Network
Using the graph library of the NNGT object
Modules
Main module
Graph classes
Main functions
Side classes
NNGT
Main classes and functions
Analysis module
Core module
Generation module
Geometry module
Lib module
Plot module
Simulation module
Analysis module
Content
Database module
Functions
Recording a simulation
Checking results in the database
Generation module
Content
Geometry module
Overview
Lib module
Content
Details
Plot module
Content
Details
Simulation module
Content
Details
Current
Table of content
User Documentation
Installation
Intro & user manual
Tutorial
Modules
Main module
Analysis module
Database module
Generation module
Geometry module
Lib module
Plot module
Simulation module
Index
A
|
B
|
C
|
D
|
E
|
F
|
G
|
H
|
I
|
L
|
M
|
N
|
O
|
P
|
R
|
S
|
T
|
U
|
W
A
Activity (class in nngt.database.db_generation)
activity (nngt.database.db_generation.Simulation attribute)
activity_id (nngt.database.db_generation.Simulation attribute)
activity_types() (in module nngt.simulation)
ActivityRecord (class in nngt.simulation)
add_edge() (nngt.Graph method)
add_edges_from() (nngt.Graph method)
add_node() (nngt.Graph method)
add_nodes_from() (nngt.Graph method)
add_to_group() (nngt.NeuralPop method)
add_weighted_edges_from() (nngt.Graph method)
adj (nngt.Graph attribute)
adjacency() (nngt.Graph method)
adjacency_matrix() (in module nngt.analysis)
(nngt.Graph method)
adjlist_inner_dict_factory (nngt.Graph attribute)
adjlist_outer_dict_factory (nngt.Graph attribute)
analyze_raster() (in module nngt.simulation)
Animation2d (in module nngt.plot)
AnimationNetwork (in module nngt.plot)
assortativity() (in module nngt.analysis)
B
bayesian_blocks() (in module nngt.analysis)
betweenness_distrib() (in module nngt.analysis)
betweenness_distribution() (in module nngt.plot)
binning() (in module nngt.analysis)
C
clear() (nngt.Graph method)
clear_all_edges() (nngt.Graph method)
closeness() (in module nngt.analysis)
clustering() (in module nngt.analysis)
compare_population_attributes() (in module nngt.plot)
completion_time (nngt.database.db_generation.Simulation attribute)
compressed_file (nngt.database.db_generation.NeuralNetwork attribute)
Computer (class in nngt.database.db_generation)
computer (nngt.database.db_generation.Simulation attribute)
computer_id (nngt.database.db_generation.Simulation attribute)
connect_neural_groups() (in module nngt.generation)
connect_neural_types() (in module nngt.generation)
Connection (class in nngt.database.db_generation)
Connections (class in nngt.core)
connections (nngt.database.db_generation.Simulation attribute)
(nngt.database.db_generation.Synapse attribute)
connections_id (nngt.database.db_generation.Simulation attribute)
copy() (nngt.Graph method)
(nngt.NeuralPop class method)
cores (nngt.database.db_generation.Computer attribute)
correlation_to_attribute() (in module nngt.plot)
create_group() (nngt.NeuralPop method)
culture_from_file() (in module nngt.geometry)
D
data (nngt.simulation.ActivityRecord attribute)
degree (nngt.Graph attribute)
degree_distrib() (in module nngt.analysis)
degree_distribution() (in module nngt.plot)
delays() (nngt.core.Connections static method)
delta_distrib() (in module nngt.lib)
diameter() (in module nngt.analysis)
directed (nngt.database.db_generation.NeuralNetwork attribute)
distance_rule() (in module nngt.generation)
distances() (nngt.core.Connections static method)
DoesNotExist (nngt.database.db_generation.Activity attribute)
(nngt.database.db_generation.Computer attribute)
(nngt.database.db_generation.Connection attribute)
(nngt.database.db_generation.NeuralNetwork attribute)
(nngt.database.db_generation.Neuron attribute)
(nngt.database.db_generation.Simulation attribute)
(nngt.database.db_generation.Synapse attribute)
draw_network() (in module nngt.plot)
E
eattr_class (nngt.Graph attribute)
edge_attr_dict_factory (nngt.Graph attribute)
edge_id() (nngt.Graph method)
edge_subgraph() (nngt.Graph method)
edges (nngt.database.db_generation.NeuralNetwork attribute)
(nngt.Graph attribute)
edges_array (nngt.Graph attribute)
edges_attributes (nngt.Graph attribute)
ei_network() (nngt.Network class method)
erdos_renyi() (in module nngt.generation)
exc_and_inhib() (nngt.Network class method)
(nngt.NeuralPop class method)
F
find_idx_nearest() (in module nngt.lib)
fixed_degree() (in module nngt.generation)
fresh_copy() (nngt.Graph method)
from_file() (nngt.Graph static method)
from_gids() (nngt.Network class method)
from_groups() (nngt.NeuralPop class method)
from_matrix() (nngt.Graph class method)
from_network() (nngt.NeuralPop class method)
G
gaussian_degree() (in module nngt.generation)
gaussian_distrib() (in module nngt.lib)
generate() (in module nngt)
get_attribute_type() (nngt.Graph method)
get_b2() (in module nngt.analysis)
get_betweenness() (nngt.Graph method)
get_config() (in module nngt)
get_degrees() (nngt.Graph method)
get_delays() (nngt.Graph method)
get_density() (nngt.Graph method)
get_edge_attributes() (nngt.Graph method)
get_edge_data() (nngt.Graph method)
get_edge_types() (nngt.Network method)
get_firing_rate() (in module nngt.analysis)
get_graph_type() (nngt.Graph method)
get_group() (nngt.NeuralPop method)
get_name() (nngt.Graph method)
get_nest_adjacency() (in module nngt.simulation)
get_neuron_type() (nngt.Network method)
get_node_attributes() (nngt.Graph method)
get_param() (nngt.NeuralPop method)
get_positions() (nngt.SpatialGraph method)
get_recording() (in module nngt.simulation)
get_results() (in module nngt.database)
get_spikes() (in module nngt.analysis)
get_weights() (nngt.Graph method)
Graph (class in nngt)
graph_id (nngt.Graph attribute)
GraphObject (in module nngt.core)
grnd_seed (nngt.database.db_generation.Simulation attribute)
GroupProperty (class in nngt)
H
has_edge() (nngt.Graph method)
has_model (nngt.NeuralGroup attribute)
has_models (nngt.NeuralPop attribute)
has_node() (nngt.Graph method)
has_predecessor() (nngt.Graph method)
has_successor() (nngt.Graph method)
I
id (nngt.database.db_generation.Activity attribute)
(nngt.database.db_generation.Computer attribute)
(nngt.database.db_generation.Connection attribute)
(nngt.database.db_generation.NeuralNetwork attribute)
(nngt.database.db_generation.Neuron attribute)
(nngt.database.db_generation.Simulation attribute)
(nngt.database.db_generation.Synapse attribute)
id_from_nest_gid() (nngt.Network method)
ids (nngt.NeuralGroup attribute)
in_degree (nngt.Graph attribute)
in_edges (nngt.Graph attribute)
int_connections (nngt.database.db_generation.Neuron attribute)
InvalidArgument
is_clear() (in module nngt.database)
is_directed() (nngt.Graph method)
is_integer() (in module nngt.lib)
is_multigraph() (nngt.Graph method)
is_network() (nngt.Graph method)
is_spatial() (nngt.Graph method)
is_valid (nngt.NeuralPop attribute)
is_valid() (nngt.NeuralGroup method)
is_weighted() (nngt.Graph method)
L
lin_correlated_distrib() (in module nngt.lib)
load_from_file() (in module nngt)
local_clustering() (in module nngt.analysis)
local_seeds (nngt.database.db_generation.Simulation attribute)
log_correlated_distrib() (in module nngt.lib)
log_simulation_end() (in module nngt.database)
log_simulation_start() (in module nngt.database)
lognormal_distrib() (in module nngt.lib)
M
make_nest_network() (in module nngt.simulation)
make_network() (nngt.Graph static method)
make_spatial() (nngt.Graph static method)
migrate() (in module nngt.database.db_generation)
monitor_groups() (in module nngt.simulation)
monitor_nodes() (in module nngt.simulation)
N
name (nngt.database.db_generation.Computer attribute)
(nngt.Graph attribute)
(nngt.NeuralGroup attribute)
nattr_class (nngt.Graph attribute)
nbunch_iter() (nngt.Graph method)
neighbors() (nngt.Graph method)
neighbours() (nngt.Graph method)
nest_gid (nngt.Network attribute)
nest_gids (nngt.NeuralGroup attribute)
Network (class in nngt)
network (nngt.database.db_generation.Simulation attribute)
network_id (nngt.database.db_generation.Simulation attribute)
network_type (nngt.database.db_generation.NeuralNetwork attribute)
NeuralGroup (class in nngt)
NeuralNetwork (class in nngt.database.db_generation)
NeuralPop (class in nngt)
Neuron (class in nngt.database.db_generation)
neuron_model (nngt.NeuralGroup attribute)
neuron_param (nngt.NeuralGroup attribute)
neuron_properties() (nngt.Network method)
new_edge() (nngt.Graph method)
new_edge_attribute() (nngt.Graph method)
new_edges() (nngt.Graph method)
new_node() (nngt.Graph method)
new_node_attribute() (nngt.Graph method)
newman_watts() (in module nngt.generation)
nngt.analysis (module)
nngt.core (module)
nngt.database.db_generation (module)
nngt.generation (module)
nngt.geometry (module)
nngt.lib (module)
nngt.plot (module)
nngt.simulation (module)
node (nngt.Graph attribute)
node_attributes() (in module nngt.analysis)
node_attributes_distribution() (in module nngt.plot)
node_dict_factory (nngt.Graph attribute)
nodes (nngt.database.db_generation.NeuralNetwork attribute)
(nngt.Graph attribute)
nodes_attributes (nngt.Graph attribute)
nonstring_container() (in module nngt.lib)
num_graphs() (nngt.Graph class method)
num_iedges() (in module nngt.analysis)
num_mpi_processes() (in module nngt)
num_networks() (nngt.Network class method)
num_scc() (in module nngt.analysis)
num_wcc() (in module nngt.analysis)
number_of_edges() (nngt.Graph method)
number_of_nodes() (nngt.Graph method)
O
on_master_process() (in module nngt)
order() (nngt.Graph method)
out_connections (nngt.database.db_generation.Neuron attribute)
out_degree (nngt.Graph attribute)
out_edges (nngt.Graph attribute)
P
palette() (in module nngt.plot)
parent (nngt.NeuralPop attribute)
phases (nngt.simulation.ActivityRecord attribute)
platform (nngt.database.db_generation.Computer attribute)
plot_activity() (in module nngt.simulation)
plot_shape() (in module nngt.geometry)
pop_largest() (in module nngt.geometry)
pop_sizes (nngt.database.db_generation.Simulation attribute)
population (nngt.database.db_generation.Simulation attribute)
(nngt.Network attribute)
post (nngt.database.db_generation.Connection attribute)
post_id (nngt.database.db_generation.Connection attribute)
pre (nngt.database.db_generation.Connection attribute)
pre_id (nngt.database.db_generation.Connection attribute)
pred (nngt.Graph attribute)
predecessors() (nngt.Graph method)
price_scale_free() (in module nngt.generation)
properties (nngt.NeuralGroup attribute)
(nngt.simulation.ActivityRecord attribute)
python (nngt.database.db_generation.Computer attribute)
R
ram (nngt.database.db_generation.Computer attribute)
random_scale_free() (in module nngt.generation)
randomize_neural_states() (in module nngt.simulation)
raster (nngt.database.db_generation.Activity attribute)
raster_plot() (in module nngt.simulation)
reciprocity() (in module nngt.analysis)
remove_edges_from() (nngt.Graph method)
remove_node() (nngt.Graph method)
remove_nodes_from() (nngt.Graph method)
reproducible_weights() (in module nngt.simulation)
reset() (in module nngt.database)
resolution (nngt.database.db_generation.Simulation attribute)
reverse() (nngt.Graph method)
S
save_spikes() (in module nngt.simulation)
save_to_file() (in module nngt)
seed() (in module nngt)
set_config() (in module nngt)
set_delays() (nngt.Graph method)
set_edge_attribute() (nngt.Graph method)
set_minis() (in module nngt.simulation)
set_model() (nngt.NeuralPop method)
set_name() (nngt.Graph method)
set_neuron_param() (nngt.NeuralPop method)
set_node_attribute() (nngt.Graph method)
set_noise() (in module nngt.simulation)
set_poisson_input() (in module nngt.simulation)
set_step_currents() (in module nngt.simulation)
set_types() (nngt.Graph method)
(nngt.Network method)
(nngt.SpatialNetwork method)
set_weights() (nngt.Graph method)
Shape (in module nngt.geometry)
shape (nngt.SpatialGraph attribute)
shapes_from_file() (in module nngt.geometry)
simplify() (nngt.simulation.ActivityRecord method)
simulated_time (nngt.database.db_generation.Simulation attribute)
Simulation (class in nngt.database.db_generation)
simulations (nngt.database.db_generation.Activity attribute)
(nngt.database.db_generation.Computer attribute)
(nngt.database.db_generation.Connection attribute)
(nngt.database.db_generation.NeuralNetwork attribute)
simulator (nngt.database.db_generation.Simulation attribute)
size (nngt.NeuralGroup attribute)
(nngt.NeuralPop attribute)
size() (nngt.Graph method)
SpatialGraph (class in nngt)
SpatialNetwork (class in nngt)
spectral_radius() (in module nngt.analysis)
start_time (nngt.database.db_generation.Simulation attribute)
subgraph() (nngt.Graph method)
subgraph_centrality() (in module nngt.analysis)
succ (nngt.Graph attribute)
successors() (nngt.Graph method)
syn_spec (nngt.NeuralPop attribute)
Synapse (class in nngt.database.db_generation)
synapse (nngt.database.db_generation.Connection attribute)
synapse_id (nngt.database.db_generation.Connection attribute)
T
to_directed() (nngt.Graph method)
to_file() (nngt.Graph method)
to_nest() (nngt.Network method)
to_undirected() (nngt.Graph method)
total_firing_rate() (in module nngt.analysis)
transitivity() (in module nngt.analysis)
type (nngt.Graph attribute)
types() (nngt.core.Connections static method)
U
uniform() (nngt.Network class method)
(nngt.NeuralPop class method)
uniform_distrib() (in module nngt.lib)
uniform_network() (nngt.Network class method)
use_backend() (in module nngt)
W
weight_distribution (nngt.database.db_generation.NeuralNetwork attribute)
weighted (nngt.database.db_generation.NeuralNetwork attribute)
weights() (nngt.core.Connections static method)