Functions — github.com/NZWANG/MM-GTUNets

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Functions81 in github.com/NZWANG/MM-GTUNets

⨍ Functions 81 ◇ Types & classes 10

↓ 4 callersMethod__init__

(self, args)

model/mm_gtunets.py:12

↓ 4 callersMethodload_tensor

(self, load_path)

utils/mydataloader.py:192

↓ 4 callersMethodsave_tensor

(self, tensor, name, save_folder)

utils/mydataloader.py:187

↓ 3 callersFunctionaccuracy

Accuracy, auc with masking.Acc of the masked samples

utils/metrics.py:32

↓ 3 callersFunctionget_fc

(file_name, variable, norm)

utils/tools.py:150

↓ 3 callersMethodget_sub_scores

(self, subject_list, score, encode=True)

utils/mydataloader.py:88

↓ 3 callersMethodget_subject_IDs

(self, id_file="id.txt", num_subjects=None)

utils/mydataloader.py:68

↓ 3 callersMethodget_timeseries

(self, subject_list)

utils/mydataloader.py:72

↓ 3 callersMethodinitialize

(self)

opt.py:122

↓ 2 callersFunctionauc

input: logits, labels

utils/metrics.py:46

↓ 2 callersMethodcal_attention_score

(self, attention, shared_attention)

model/mm_gtunets.py:117

↓ 2 callersMethodcal_smh_loss

(self, embed, L)

model/mm_gtunets.py:252

↓ 2 callersMethodcalculate_connectivity

(self, timeseries, subject, kind='correlation', save=True)

utils/mydataloader.py:76

↓ 2 callersFunctionevaluate

()

train_mm_gtunets.py:83

↓ 2 callersMethodget_labels

(self, subject_list, binary=True)

utils/mydataloader.py:96

↓ 2 callersFunctionget_subject_score

Obtain phenotypic information of subjects.

utils/tools.py:217

↓ 2 callersFunctionmetrics

(preds, labels)

utils/metrics.py:67

↓ 2 callersMethodsave_checkpoint

Saves model when validation loss decrease.

utils/tools.py:64

↓ 1 callersMethodcal_deg_loss

(self)

model/mm_gtunets.py:257

↓ 1 callersFunctioncal_feature_sim

(features, tensor=True, self_loop=True)

utils/tools.py:237

↓ 1 callersMethodcal_graph_loss

(self, img_embed, ph_embed)

model/mm_gtunets.py:232

↓ 1 callersMethodcal_reward_loss

(self)

model/mm_gtunets.py:263

↓ 1 callersMethodcal_value

(self, graphs, reward, penalty)

model/mm_gtunets.py:101

↓ 1 callersFunctionchoose_atlas

(atlas)

opt.py:36

↓ 1 callersFunctionchoose_dataset

(dataset)

opt.py:8

↓ 1 callersFunctioncreate_id_file

Create the ID file.

utils/tools.py:88

↓ 1 callersFunctioncreate_reward_penalty_graph

(ph_dict, labels, train_idx, val_idx, test_idx, args)

model/rp_graph.py:4

↓ 1 callersMethodcreate_rp_graph

(self, affinity_graphs)

model/mm_gtunets.py:227

↓ 1 callersMethoddata_split

(self, n_folds, val_ratio=0)

utils/mydataloader.py:175

↓ 1 callersFunctionfeature_selection

matrix : feature matrix (num_subjects x num_features) labels : ground truth labels (num_subjects x 1) train_ind

utils/tools.py:292

↓ 1 callersMethodfetch_abide

(self, derivatives)

utils/mydataloader.py:126

↓ 1 callersMethodforward

(self, x)

model/mm_gtunets.py:39

↓ 1 callersFunctionget_ids

Obtain the ID of subjects.

utils/tools.py:72

↓ 1 callersFunctionget_networks

(subject_list, args, norm=True, kind='correlation')

utils/tools.py:162

↓ 1 callersMethodget_networks

(self, subject_list, norm=True, kind='correlation')

utils/mydataloader.py:80

↓ 1 callersMethodget_phenotypic_data

(self, subject_list, score_list)

utils/mydataloader.py:105

↓ 1 callersFunctionget_timeseries

(subject_list, args)

utils/tools.py:124

↓ 1 callersFunctionget_upper_triangle_networks

(subject_list, args, norm=True, kind='correlation')

utils/tools.py:190

↓ 1 callersMethodget_upper_triangle_networks

(self, subject_list, norm=True)

utils/mydataloader.py:84

↓ 1 callersMethodinit_vae_early_stop

(self)

model/mm_gtunets.py:182

↓ 1 callersMethodinit_vae_optimizer

(self)

model/mm_gtunets.py:178

↓ 1 callersMethodinit_vae_save_path

(self)

model/mm_gtunets.py:175

↓ 1 callersMethodload_data

(self, save=False)

utils/mydataloader.py:28

↓ 1 callersMethodload_vae

(self)

model/mm_gtunets.py:185

↓ 1 callersFunctionmove_files_to_main_directory

(main_directory)

utils/tools.py:318

↓ 1 callersFunctionnumeric_score

(pred, gt)

utils/metrics.py:59

↓ 1 callersFunctionordinal_encoding

Map string data to integer, filling missing values with -1.

utils/tools.py:264

↓ 1 callersMethodprint_args

(self)

opt.py:112

↓ 1 callersFunctionprint_result

(opt, n_folds, accs, sens, spes, aucs, f1)

utils/tools.py:352

↓ 1 callersMethodprocess_abide

(self, kind='correlation')

utils/mydataloader.py:134

↓ 1 callersMethodreparameterize

(self, mu, logvar)

model/mm_gtunets.py:34

↓ 1 callersFunctionreplace_non_floats

(file_name)

utils/tools.py:334

↓ 1 callersMethodreset

(self)

utils/metrics.py:19

↓ 1 callersMethodreset_parameters

r"""Resets all learnable parameters of the module.

model/gtunet.py:59

↓ 1 callersFunctionsave_result

(opt, n_folds, accs, sens, spes, aucs, f1)

utils/tools.py:361

↓ 1 callersMethodset_seed

(self, seed=0)

opt.py:126

↓ 1 callersMethodsetup_attenton

(self)

model/mm_gtunets.py:171

↓ 1 callersMethodsetup_vae_pretrain

(self)

model/mm_gtunets.py:165

↓ 1 callersFunctionsubject_connectivity

(timeseries, subject, args, kind='correlation', save=True)

utils/tools.py:107

↓ 1 callersFunctiontrain

()

train_mm_gtunets.py:13

↓ 1 callersMethodtrain_vae

(self, ph_features)

model/mm_gtunets.py:193

(self, val_loss, model)

utils/tools.py:45

Method__init__

(self, model=None, dataset="ABIDE", atlas="aal")

opt.py:45

Method__init__

(self, args, features=None, labels=None, ph_dict=None, ph_data=None)

utils/mydataloader.py:13

Method__init__

Args: patience (int): How long to wait after last time validation loss improved. Default: 7

( self, in_channels: int, hidden_channels: int, out_channels:

model/gtunet.py:13

Method__init__

(self, in_channels, out_channels)

model/mm_gtunets.py:54

Method__init__

(self, args)

model/mm_gtunets.py:68

Method__init__

(self, args)

model/mm_gtunets.py:110

Method__init__

(self, args, fold)

model/mm_gtunets.py:143

(self, x: Tensor, edge_index: Tensor, edge_weight: OptTensor = None, batch: Op

model/gtunet.py:68

Methodforward

(self, x)

model/mm_gtunets.py:59

Methodforward

(self, affinity_graphs)

model/mm_gtunets.py:84

Methodforward

(self, img_embed, ph_embed)

model/mm_gtunets.py:122

Methodforward

(self, img_features, ph_features, affinity_graphs)

model/mm_gtunets.py:267

Functionprf

input: logits, labels

utils/metrics.py:38

Methodprocess_adhd200

(self, kind='correlation', filter=True)

utils/mydataloader.py:145

Methodupdate

(self, val, n=1)

utils/metrics.py:25