Index

A

abs_bicorr() (in module preprocess_functions)

accuracy() (preprocess_functions.ElasticNet method) AUROC() (in module train)

B

batch_norms (GNN_MME.GAT_MME attribute) (GNN_MME.GCN_MME attribute) (GNN_MME.GSage_MME attribute)

C

calculate_loss() (preprocess_functions.ElasticNet method) check_wall_names() (in module preprocess_functions) confusion_matrix() (in module train)

convert_dataframe_to_numpy() (in module preprocess_functions) cosine_corr() (in module preprocess_functions) create_similarity_matrix() (in module preprocess_functions) custom_cpm() (in module preprocess_functions)

D

data_parsing() (in module utils) data_preprocess() (in module preprocess_functions) decoder (GNN_MME.Encoder attribute) DESEQ() (in module preprocess_functions)

dominateset() (in module preprocess_functions) drop (GNN_MME.Encoder attribute) (GNN_MME.GAT_MME attribute) (GNN_MME.GCN_MME attribute) (GNN_MME.GSage_MME attribute)

E

elastic_net() (in module preprocess_functions) ElasticNet (class in preprocess_functions) embedding_extraction() (GNN_MME.GAT_MME method) (GNN_MME.GCN_MME method) (GNN_MME.GSage_MME method)

Encoder (class in GNN_MME) encoder (GNN_MME.Encoder attribute) encoder_dims (GNN_MME.GAT_MME attribute) (GNN_MME.GCN_MME attribute) (GNN_MME.GSage_MME attribute) evaluate() (in module train)

F

feature_importance() (GNN_MME.GCN_MME method) filter_genes() (in module preprocess_functions) forward() (GNN_MME.Encoder method) (GNN_MME.GAT_MME method) (GNN_MME.GCN_MME method) (GNN_MME.GSage_MME method) (preprocess_functions.ElasticNet method)

G

GAT_MME (class in GNN_MME) GCN_MME (class in GNN_MME) gen_new_graph() (in module preprocess_functions) get_gpu_memory() (in module utils) get_k_neighbors() (in module preprocess_functions)

GNN_MME module gnnlayers (GNN_MME.GAT_MME attribute) (GNN_MME.GCN_MME attribute) (GNN_MME.GSage_MME attribute) GSage_MME (class in GNN_MME)

H

hidden_feats (GNN_MME.GAT_MME attribute) (GNN_MME.GCN_MME attribute) (GNN_MME.GSage_MME attribute)

I

indices_removal_adjust() (in module utils) inference() (GNN_MME.GAT_MME method) (GNN_MME.GCN_MME method) (GNN_MME.GSage_MME method)

init_weights() (in module utils) input_dims (GNN_MME.GAT_MME attribute) (GNN_MME.GCN_MME attribute) (GNN_MME.GSage_MME attribute)

K

knn_graph_generation() (in module preprocess_functions)

L

layerwise_importance() (GNN_MME.GCN_MME method)

layerwise_infer() (in module train) linear (preprocess_functions.ElasticNet attribute)

M

merge_dfs() (in module utils) module GNN_MME preprocess_functions train utils

N

network_from_csv() (in module utils) norm (GNN_MME.Encoder attribute) normalize() (in module preprocess_functions) num_classes (GNN_MME.GAT_MME attribute) (GNN_MME.GCN_MME attribute) (GNN_MME.GSage_MME attribute)

num_layers (GNN_MME.GAT_MME attribute) (GNN_MME.GCN_MME attribute) (GNN_MME.GSage_MME attribute)

P

pearson_corr() (in module preprocess_functions) plot_knn_network() (in module preprocess_functions)

preprocess_functions module

S

SNF() (in module preprocess_functions)

T

train module

train() (in module train) tsne_embedding_plot() (in module train)

U

utils module