Index

_

__init__() (Argument method) (AvgReadout method) (BatchedData method) (BooleanString method) (ClassificationProblem method) (Count method) (CSVList method) (DGI method) (DGILoss method) (Discriminator method) (DistanceDecoder method) (EarlyStopping method) (EmbeddingMixin method) (EntMin method) (FileDeleteFinalizer method) (GAE method) (GAEconv method) (GCN method) (Graph method) (HyperTuneObjective method) (JitGraph method) (LANL method) (LANLdays method) (logger method) (Logistic method) (LogReg method) (MLP method) (MMapData method) (NoLock method) (NPGraph method) (Partition method) (ResultsDict method) (ScopedTemporaryFile method) (ScriptParser method) (SNN method) (SyncDict method) (TGraph method) (Throttler method) (Timer method) (Union method) (UnionFind method) (VATloss method) (VGAE method) (VGAEconv method)

__new__() (BooleanString static method)

A

accumulate() (in module local2global_embedding.run.scripts.utils) accuracy() (in module local2global_embedding.classfication) acquire() (NoLock method) adj() (Graph method) adj_weighted() (Graph method)

all_data() (ClassificationProblem method) all_errors() (in module local2global_embedding.outliers) apply_partition() (in module local2global_embedding.run.scripts.utils) Argument (class in local2global_embedding.run.utils) AvgReadout (class in local2global_embedding.embedding.dgi.layers.readout)

B

BatchedData (class in local2global_embedding.classfication) bfs_order() (Graph method) (NPGraph method) (TGraph method)

bipartite_svd_patches() (in module local2global_embedding.embedding.svd) BooleanString (class in local2global_embedding.run.utils) bootstrap_nan_z_score() (in module local2global_embedding.outliers)

C

classificationloader() (in module local2global_embedding.run.utils) ClassificationProblem (class in local2global_embedding.classfication) close() (in module local2global_embedding.progress) cluster_file_name() (in module local2global_embedding.run.utils) cluster_string() (in module local2global_embedding.run.utils) compute() (in module local2global_embedding.run.scripts.utils) conductance() (in module local2global_embedding.network.utils) conductance_weighted_graph() (in module local2global_embedding.sparsify) connected_component_ids() (Graph method) (NPGraph method) (TGraph method)

contains_dim() (ResultsDict method) Count (class in local2global_embedding.run.scripts.train) count_chunk() (in module local2global_embedding.run.scripts.utils) create_model() (in module local2global_embedding.run.scripts.train) create_overlapping_patches() (in module local2global_embedding.patches) create_patch_data() (in module local2global_embedding.patches) CSVList (class in local2global_embedding.run.utils)

D

dask_unpack() (in module local2global_embedding.run.utils) dataloader() (in module local2global_embedding.run.utils) delete_dim() (ResultsDict method) DGI (class in local2global_embedding.embedding.dgi.models.dgi)

DGILoss (class in local2global_embedding.embedding.dgi.utils.loss) Discriminator (class in local2global_embedding.embedding.dgi.layers.discriminator) DistanceDecoder (class in local2global_embedding.embedding.gae.layers.decoders) distributed_clustering() (in module local2global_embedding.clustering)

E

EarlyStopping (class in local2global_embedding.utils) edge_sampling_sparsify() (in module local2global_embedding.sparsify) edges() (Graph method) (NPGraph method) (TGraph method) edges_weighted() (Graph method) (NPGraph method) (TGraph method)

effective_resistances() (in module local2global_embedding.sparsify) embed() (DGI method) (EmbeddingMixin method) EmbeddingMixin (class in local2global_embedding.embedding.gae.utils.mixins) EntMin (class in local2global_embedding.classfication) evaluate() (in module local2global_embedding.run.scripts.evaluate)

F

fennel_clustering() (in module local2global_embedding.clustering) FileDeleteFinalizer (class in local2global_embedding.run.scripts.utils) flatten() (in module local2global_embedding.utils) forward() (AvgReadout method) (DGI method) (DGILoss method) (Discriminator method) (DistanceDecoder method) (EntMin method) (GAEconv method) (GCN method) (Logistic method) (LogReg method) (MLP method) (SNN method) (VATloss method) (VGAEconv method)

forward_all() (DistanceDecoder method) from_networkx() (Graph class method) from_tg() (Graph class method)

G

GAE (class in local2global_embedding.embedding.gae.models.gae) GAE_loss() (in module local2global_embedding.embedding.gae.utils.loss) GAEconv (class in local2global_embedding.embedding.gae.layers.GAEconv) GCN (class in local2global_embedding.embedding.dgi.layers.gcn) geodesic_expand_overlap() (in module local2global_embedding.patches) get() (ResultsDict method) get_aligned_embedding() (in module local2global_embedding.run.scripts.hierarchical_l2g_align_patches)

get_ax_size() (in module local2global_embedding.run.umap_plot) get_coordinate_chunk() (in module local2global_embedding.run.scripts.utils) get_device() (in module local2global_embedding.utils) get_or_init_client() (in module local2global_embedding.run.utils) global_align_errors() (in module local2global_embedding.run.scripts.global_align_errors) Graph (class in local2global_embedding.network.graph) grid_search() (in module local2global_embedding.classfication)

H

has_node_labels() (Graph method) hierarchical_aglomerative_clustering() (in module local2global_embedding.clustering) hierarchical_l2g_align_patches() (in module local2global_embedding.run.scripts.hierarchical_l2g_align_patches)

hierarchical_sparsify() (in module local2global_embedding.sparsify) hyper_tune() (in module local2global_embedding.classfication) hyper_tune_parameters() (in module local2global_embedding.run.scripts.hyper_tune_parameters) HyperTuneObjective (class in local2global_embedding.classfication)

I

iForest_error() (in module local2global_embedding.outliers) is_edge() (Graph method) (NPGraph method) (TGraph method)

J

JitGraph (class in local2global_embedding.network.npgraph)

L

l2g_align_patches() (in module local2global_embedding.run.scripts.l2g_align_patches) labeled_data() (ClassificationProblem method) LANL (class in local2global_embedding.datasets.LANL) LANLdays (class in local2global_embedding.datasets.LANL) lcc() (Graph method) leave_out_nan_rms_score() (in module local2global_embedding.outliers) leave_out_nan_z_score() (in module local2global_embedding.outliers) leave_out_z_score_errors() (in module local2global_embedding.outliers) (in module local2global_embedding.run.scripts.leave_out_z_score_errors) linear_model() (in module local2global_embedding.classfication) load() (NPGraph class method) (ResultsDict method) (SyncDict method) load_cl_data() (in module local2global_embedding.run.scripts.utils) load_classification_problem() (in module local2global_embedding.run.utils) load_data() (in module local2global_embedding.run.utils) load_file_patch() (in module local2global_embedding.run.scripts.utils) load_patch() (in module local2global_embedding.run.scripts.utils) load_patches() (in module local2global_embedding.run.scripts.utils) local2global_embedding module local2global_embedding.classfication module local2global_embedding.clustering module local2global_embedding.datasets module local2global_embedding.datasets.LANL module local2global_embedding.embedding module local2global_embedding.embedding.dgi module local2global_embedding.embedding.dgi.layers module local2global_embedding.embedding.dgi.layers.discriminator module local2global_embedding.embedding.dgi.layers.gcn module local2global_embedding.embedding.dgi.layers.readout module local2global_embedding.embedding.dgi.models module local2global_embedding.embedding.dgi.models.dgi module local2global_embedding.embedding.dgi.models.logreg module local2global_embedding.embedding.dgi.utils module local2global_embedding.embedding.dgi.utils.loss module local2global_embedding.embedding.eval module local2global_embedding.embedding.gae module local2global_embedding.embedding.gae.layers module local2global_embedding.embedding.gae.layers.decoders module local2global_embedding.embedding.gae.layers.GAEconv module local2global_embedding.embedding.gae.layers.VGAEconv module local2global_embedding.embedding.gae.models module local2global_embedding.embedding.gae.models.gae module local2global_embedding.embedding.gae.models.vgae module local2global_embedding.embedding.gae.utils module local2global_embedding.embedding.gae.utils.loss module local2global_embedding.embedding.gae.utils.mixins module local2global_embedding.embedding.svd module local2global_embedding.embedding.train module local2global_embedding.network module local2global_embedding.network.graph module

local2global_embedding.network.npgraph module local2global_embedding.network.tgraph module local2global_embedding.network.utils module local2global_embedding.outliers module local2global_embedding.patches module local2global_embedding.plot module local2global_embedding.progress module local2global_embedding.run module local2global_embedding.run.loaders module local2global_embedding.run.loaders.amazon module local2global_embedding.run.loaders.lanl module local2global_embedding.run.loaders.mag240m module local2global_embedding.run.loaders.planetoid module local2global_embedding.run.once_per_worker module local2global_embedding.run.plot module local2global_embedding.run.plot_patches module local2global_embedding.run.run module local2global_embedding.run.run_temporal module local2global_embedding.run.scripts module local2global_embedding.run.scripts.evaluate module local2global_embedding.run.scripts.functions module local2global_embedding.run.scripts.global_align_errors module local2global_embedding.run.scripts.hierarchical_l2g_align_patches module local2global_embedding.run.scripts.hyper_tune_parameters module local2global_embedding.run.scripts.l2g_align_patches module local2global_embedding.run.scripts.leave_out_z_score_errors module local2global_embedding.run.scripts.mlp_grid_search_eval module local2global_embedding.run.scripts.no_transform_embedding module local2global_embedding.run.scripts.prepare_patches module local2global_embedding.run.scripts.svd_patches module local2global_embedding.run.scripts.temporal_align_errors module local2global_embedding.run.scripts.train module local2global_embedding.run.scripts.utils module local2global_embedding.run.scripts.windowed_align_errors module local2global_embedding.run.umap_plot module local2global_embedding.run.utils module local2global_embedding.sparsify module local2global_embedding.utils module LOF_error() (in module local2global_embedding.outliers) logger (class in local2global_embedding.classfication) Logistic (class in local2global_embedding.classfication) LogReg (class in local2global_embedding.embedding.dgi.models.logreg) louvain_clustering() (in module local2global_embedding.clustering) lr_grid_search() (in module local2global_embedding.embedding.train)

M

max() (ResultsDict method) max_ind() (in module local2global_embedding.run.scripts.utils) mean_and_deviation() (in module local2global_embedding.run.plot) mean_embedding() (in module local2global_embedding.run.scripts.utils) mean_embedding_chunk() (in module local2global_embedding.run.scripts.utils) merge_small_clusters() (in module local2global_embedding.patches) metis_clustering() (in module local2global_embedding.clustering) min() (ResultsDict method) MLP (class in local2global_embedding.classfication) mlp_grid_search_eval() (in module local2global_embedding.run.scripts.mlp_grid_search_eval) mlp_model() (in module local2global_embedding.classfication) mmap_dask_array() (in module local2global_embedding.run.scripts.utils) MMapData (class in local2global_embedding.classfication) module local2global_embedding local2global_embedding.classfication local2global_embedding.clustering local2global_embedding.datasets local2global_embedding.datasets.LANL local2global_embedding.embedding local2global_embedding.embedding.dgi local2global_embedding.embedding.dgi.layers local2global_embedding.embedding.dgi.layers.discriminator local2global_embedding.embedding.dgi.layers.gcn local2global_embedding.embedding.dgi.layers.readout local2global_embedding.embedding.dgi.models local2global_embedding.embedding.dgi.models.dgi local2global_embedding.embedding.dgi.models.logreg local2global_embedding.embedding.dgi.utils local2global_embedding.embedding.dgi.utils.loss local2global_embedding.embedding.eval local2global_embedding.embedding.gae local2global_embedding.embedding.gae.layers local2global_embedding.embedding.gae.layers.decoders local2global_embedding.embedding.gae.layers.GAEconv local2global_embedding.embedding.gae.layers.VGAEconv local2global_embedding.embedding.gae.models local2global_embedding.embedding.gae.models.gae local2global_embedding.embedding.gae.models.vgae local2global_embedding.embedding.gae.utils local2global_embedding.embedding.gae.utils.loss local2global_embedding.embedding.gae.utils.mixins local2global_embedding.embedding.svd local2global_embedding.embedding.train local2global_embedding.network local2global_embedding.network.graph local2global_embedding.network.npgraph local2global_embedding.network.tgraph local2global_embedding.network.utils local2global_embedding.outliers local2global_embedding.patches local2global_embedding.plot local2global_embedding.progress local2global_embedding.run local2global_embedding.run.loaders local2global_embedding.run.loaders.amazon local2global_embedding.run.loaders.lanl local2global_embedding.run.loaders.mag240m local2global_embedding.run.loaders.planetoid local2global_embedding.run.once_per_worker local2global_embedding.run.plot local2global_embedding.run.plot_patches local2global_embedding.run.run local2global_embedding.run.run_temporal local2global_embedding.run.scripts local2global_embedding.run.scripts.evaluate local2global_embedding.run.scripts.functions local2global_embedding.run.scripts.global_align_errors local2global_embedding.run.scripts.hierarchical_l2g_align_patches local2global_embedding.run.scripts.hyper_tune_parameters local2global_embedding.run.scripts.l2g_align_patches local2global_embedding.run.scripts.leave_out_z_score_errors local2global_embedding.run.scripts.mlp_grid_search_eval local2global_embedding.run.scripts.no_transform_embedding local2global_embedding.run.scripts.prepare_patches local2global_embedding.run.scripts.svd_patches local2global_embedding.run.scripts.temporal_align_errors local2global_embedding.run.scripts.train local2global_embedding.run.scripts.utils local2global_embedding.run.scripts.windowed_align_errors local2global_embedding.run.umap_plot local2global_embedding.run.utils local2global_embedding.sparsify local2global_embedding.utils

move_to_tmp() (in module local2global_embedding.run.scripts.utils)

N

nan_z_score() (in module local2global_embedding.outliers) nearest_neighbor_sparsify() (in module local2global_embedding.sparsify) neighbourhood() (Graph method) (NPGraph method) (TGraph method)

no_transform_embedding() (in module local2global_embedding.run.scripts.no_transform_embedding) nodes_in_lcc() (Graph method) (NPGraph method) (TGraph method) NoLock (class in local2global_embedding.run.utils) NPGraph (class in local2global_embedding.network.npgraph)

O

once_per_worker() (in module local2global_embedding.run.once_per_worker)

P

parse() (ScriptParser method) Partition (class in local2global_embedding.clustering) partition_graph() (Graph method) (NPGraph method) (TGraph method) patch_folder_name() (in module local2global_embedding.run.utils) plot() (in module local2global_embedding.run.plot) (in module local2global_embedding.run.plot_patches)

plot_all() (in module local2global_embedding.run.plot) plot_embedding() (in module local2global_embedding.run.umap_plot) plot_hyper_results() (in module local2global_embedding.classfication) plot_with_errorbars() (in module local2global_embedding.run.plot) plt_score() (in module local2global_embedding.outliers) predict() (in module local2global_embedding.classfication) prepare_patches() (in module local2global_embedding.run.scripts.prepare_patches)

Q

quantile_errors() (in module local2global_embedding.outliers)

R

random_split() (in module local2global_embedding.classfication) reconstruction_auc() (in module local2global_embedding.embedding.eval) reduce_to_dims() (ResultsDict method) relaxed_spanning_tree() (in module local2global_embedding.sparsify) release() (NoLock method) remove_file() (in module local2global_embedding.run.scripts.utils) reset() (in module local2global_embedding.progress) reset_parameters() (DGI method) (Discriminator method) (GCN method) (Logistic method) (MLP method) (SNN method)

resistance_sparsify() (in module local2global_embedding.sparsify) resistance_weighted_graph() (in module local2global_embedding.sparsify) resplit() (ClassificationProblem method) restore_from_tmp() (in module local2global_embedding.run.scripts.utils) ResultsDict (class in local2global_embedding.run.utils) rolling_window_graph() (in module local2global_embedding.patches) run() (in module local2global_embedding.run.run) (in module local2global_embedding.run.run_temporal) (ScriptParser method) run_script() (in module local2global_embedding.run.utils) runs() (ResultsDict method)

S

sample_negative_edges() (Graph method) (NPGraph method) (TGraph method) sample_positive_edges() (Graph method) (NPGraph method) (TGraph method) save() (NPGraph method) (ResultsDict method) (SyncDict method) ScopedTemporaryFile (class in local2global_embedding.run.scripts.utils) ScriptParser (class in local2global_embedding.run.utils) select_loss() (in module local2global_embedding.run.scripts.train) set_device() (in module local2global_embedding.utils)

sliding_window_errors() (in module local2global_embedding.outliers) SNN (class in local2global_embedding.classfication) snn_model() (in module local2global_embedding.classfication) spanning_tree() (in module local2global_embedding.network.utils) spanning_tree_mask() (in module local2global_embedding.network.utils) speye() (in module local2global_embedding.utils) spread_clustering() (in module local2global_embedding.clustering) subgraph() (Graph method) (NPGraph method) (TGraph method) submit_ok() (Throttler method) svd_patches() (in module local2global_embedding.run.scripts.svd_patches) SyncDict (class in local2global_embedding.run.utils)

T

temporal_align_errors() (in module local2global_embedding.run.scripts.temporal_align_errors) test_data() (ClassificationProblem method) TGraph (class in local2global_embedding.network.tgraph) Throttler (class in local2global_embedding.run.utils) Timer (class in local2global_embedding.utils) to() (Graph method) (TGraph method)

to_networkx() (Graph method) (TGraph method) train() (in module local2global_embedding.classfication) (in module local2global_embedding.embedding.train) (in module local2global_embedding.run.scripts.train) training_data() (ClassificationProblem method)

U

Union (class in local2global_embedding.run.utils) UnionFind (class in local2global_embedding.network.utils)

update() (in module local2global_embedding.progress) update_dim() (ResultsDict method)

V

validation_accuracy() (in module local2global_embedding.classfication) validation_data() (ClassificationProblem method) VATloss (class in local2global_embedding.classfication)

VGAE (class in local2global_embedding.embedding.gae.models.vgae) VGAE_loss() (in module local2global_embedding.embedding.gae.utils.loss) VGAEconv (class in local2global_embedding.embedding.gae.layers.VGAEconv)

W

watch_progress() (in module local2global_embedding.run.utils) weights_init() (LogReg method)

windowed_align_errors() (in module local2global_embedding.run.scripts.windowed_align_errors) with_dependencies() (in module local2global_embedding.run.run)

Z

z_score_boost_errors() (in module local2global_embedding.outliers)

z_score_errors() (in module local2global_embedding.outliers)