Index

A

activated_path_for_ngl() (in module connectome_interpreter.activation_maximisation) activation_function() (connectome_interpreter.activation_maximisation.MultilayeredNetwork method) activation_maximisation() (in module connectome_interpreter.activation_maximisation) activations (connectome_interpreter.activation_maximisation.MultilayeredNetwork attribute) activations_to_df() (in module connectome_interpreter.activation_maximisation)

activations_to_df_batched() (in module connectome_interpreter.activation_maximisation) activity_by_column() (in module connectome_interpreter.activation_maximisation) add_first_n_matrices() (in module connectome_interpreter.compress_paths) add_sign() (in module connectome_interpreter.activation_maximisation) adjacency_df_to_el() (in module connectome_interpreter.utils) all_weights (connectome_interpreter.activation_maximisation.MultilayeredNetwork attribute)

B

batch_size (connectome_interpreter.activation_maximisation.TargetActivation attribute)

biases (connectome_interpreter.activation_maximisation.MultilayeredNetwork property)

C

change_model_weights() (in module connectome_interpreter.utils) check_consecutive_layers() (in module connectome_interpreter.utils) compare_connectivity() (in module connectome_interpreter.utils) compare_layered_paths() (in module connectome_interpreter.path_finding) compress_paths() (in module connectome_interpreter.compress_paths) compress_paths_dense_chunked() (in module connectome_interpreter.compress_paths) compress_paths_not_chunked() (in module connectome_interpreter.compress_paths) compress_paths_signed() (in module connectome_interpreter.compress_paths) compress_paths_signed_no_chunking() (in module connectome_interpreter.compress_paths) compute_flow_hitting_time() (in module connectome_interpreter.external_paths) connected_components() (in module connectome_interpreter.path_finding) connectome_interpreter.activation_maximisation module connectome_interpreter.compress_paths module

connectome_interpreter.external_map module connectome_interpreter.external_paths module connectome_interpreter.path_finding module connectome_interpreter.utils module contribution_by_path_lengths() (in module connectome_interpreter.compress_paths) contribution_by_path_lengths_data() (in module connectome_interpreter.compress_paths) contribution_by_path_lengths_heatmap() (in module connectome_interpreter.compress_paths) coo_tensor_to_el() (in module connectome_interpreter.utils) coo_to_el() (in module connectome_interpreter.utils) count_keys_per_value() (in module connectome_interpreter.utils) create_layered_positions() (in module connectome_interpreter.path_finding) custom_activation_function (connectome_interpreter.activation_maximisation.MultilayeredNetwork attribute)

D

default_bias (connectome_interpreter.activation_maximisation.MultilayeredNetwork attribute) display_df() (in module connectome_interpreter.utils) divisive_normalization (connectome_interpreter.activation_maximisation.MultilayeredNetwork attribute)

divisive_strength (connectome_interpreter.activation_maximisation.MultilayeredNetwork attribute) divnorm() (connectome_interpreter.activation_maximisation.MultilayeredNetwork method) dynamic_representation() (in module connectome_interpreter.utils)

E

effective_conn_from_paths() (in module connectome_interpreter.compress_paths) el_within_n_steps() (in module connectome_interpreter.path_finding)

exciter1 (connectome_interpreter.path_finding.XORCircuit attribute) exciter2 (connectome_interpreter.path_finding.XORCircuit attribute)

F

filter_paths() (in module connectome_interpreter.path_finding) find_instance_flow() (in module connectome_interpreter.external_paths) find_path_iteratively() (in module connectome_interpreter.path_finding)

find_path_once() (in module connectome_interpreter.path_finding) find_shortest_paths() (in module connectome_interpreter.external_paths) find_xor() (in module connectome_interpreter.path_finding) forward() (connectome_interpreter.activation_maximisation.MultilayeredNetwork method)

G

get_activations() (in module connectome_interpreter.utils) get_activations_for_path() (in module connectome_interpreter.activation_maximisation) get_batch_targets() (connectome_interpreter.activation_maximisation.TargetActivation method) get_input_activation() (in module connectome_interpreter.activation_maximisation)

get_neuron_activation() (in module connectome_interpreter.activation_maximisation) get_ngl_link() (in module connectome_interpreter.utils) group_edge_by() (in module connectome_interpreter.utils) group_paths() (in module connectome_interpreter.path_finding)

H

hex_heatmap() (in module connectome_interpreter.external_map)

I

indices (connectome_interpreter.activation_maximisation.MultilayeredNetwork attribute) inhibitor (connectome_interpreter.path_finding.XORCircuit attribute)

input1 (connectome_interpreter.path_finding.XORCircuit attribute) input2 (connectome_interpreter.path_finding.XORCircuit attribute) input_from_df() (in module connectome_interpreter.activation_maximisation)

L

layered_el() (in module connectome_interpreter.external_paths)

load_dataset() (in module connectome_interpreter.external_map) looming_stimulus() (in module connectome_interpreter.external_map)

M

make_grid_inputs() (in module connectome_interpreter.utils) make_sine_stim() (in module connectome_interpreter.external_map) map_to_experiment() (in module connectome_interpreter.external_map) modify_coo_matrix() (in module connectome_interpreter.utils) module connectome_interpreter.activation_maximisation connectome_interpreter.compress_paths connectome_interpreter.external_map connectome_interpreter.external_paths connectome_interpreter.path_finding connectome_interpreter.utils

MultilayeredNetwork (class in connectome_interpreter.activation_maximisation)

N

num_layers (connectome_interpreter.activation_maximisation.MultilayeredNetwork attribute)

O

output (connectome_interpreter.path_finding.XORCircuit attribute)

output_grid_data() (in module connectome_interpreter.utils)

P

path_for_ngl() (in module connectome_interpreter.path_finding) plot_activity_by_column() (in module connectome_interpreter.utils) plot_flow_layered_paths() (in module connectome_interpreter.external_paths)

plot_layered_paths() (in module connectome_interpreter.utils) plot_mollweide_projection() (in module connectome_interpreter.external_map) plot_output_grid() (in module connectome_interpreter.utils) pytorch_sparse_to_scipy() (in module connectome_interpreter.utils)

R

raw_biases (connectome_interpreter.activation_maximisation.MultilayeredNetwork attribute) read_precomputed() (in module connectome_interpreter.compress_paths)

remove_excess_neurons() (in module connectome_interpreter.path_finding) remove_excess_neurons_batched() (in module connectome_interpreter.path_finding) result_summary() (in module connectome_interpreter.compress_paths)

S

saliency() (in module connectome_interpreter.activation_maximisation) sc_connectivity_summary() (in module connectome_interpreter.utils) scipy_sparse_to_pytorch() (in module connectome_interpreter.utils)

sensory_indices (connectome_interpreter.activation_maximisation.MultilayeredNetwork attribute) set_param_grads() (connectome_interpreter.activation_maximisation.MultilayeredNetwork method) signed_effective_conn_from_paths() (in module connectome_interpreter.compress_paths) slope (connectome_interpreter.activation_maximisation.MultilayeredNetwork attribute)

T

TargetActivation (class in connectome_interpreter.activation_maximisation) targets (connectome_interpreter.activation_maximisation.TargetActivation attribute) tensor_to_csc() (in module connectome_interpreter.utils) threshold (connectome_interpreter.activation_maximisation.MultilayeredNetwork attribute)

to_nparray() (in module connectome_interpreter.utils) torch_sparse_where() (in module connectome_interpreter.utils) train_model() (in module connectome_interpreter.activation_maximisation) training_mode() (in module connectome_interpreter.activation_maximisation) trim_inprop_by_flow() (in module connectome_interpreter.external_paths)

X

XORCircuit (class in connectome_interpreter.path_finding)