Index

A

acc() (multi_med_image_ml.MultiInputTester.MultiInputTester method) activations_hook() (multi_med_image_ml.models.MultiInputModule method) add() (multi_med_image_ml.Records.AllRecords method) add_json() (multi_med_image_ml.DataBaseWrapper.DataBaseWrapper method)

all_records (multi_med_image_ml.MedImageLoader.MedImageLoader attribute) AllRecords (class in multi_med_image_ml.Records) augment (multi_med_image_ml.MedImageLoader.MedImageLoader attribute) AutoEncoder1D (class in multi_med_image_ml.models)

B

batch_by_pid (multi_med_image_ml.MedImageLoader.MedImageLoader attribute) batch_size (multi_med_image_ml.MedImageLoader.MedImageLoader attribute) (multi_med_image_ml.MultiInputTrainer.MultiInputTrainer attribute) (multi_med_image_ml.Records.BatchRecord attribute)

BatchRecord (class in multi_med_image_ml.Records) bdate (multi_med_image_ml.Records.ImageRecord attribute) bucketize() (in module multi_med_image_ml.utils) build_metadata() (multi_med_image_ml.DataBaseWrapper.DataBaseWrapper method) build_pandas_database() (multi_med_image_ml.MedImageLoader.MedImageLoader method)

C

C (multi_med_image_ml.Records.ImageRecord attribute) C_dim (multi_med_image_ml.MedImageLoader.MedImageLoader attribute) (multi_med_image_ml.models.MultiInputModule attribute) (multi_med_image_ml.Records.ImageRecord attribute) cache (multi_med_image_ml.MedImageLoader.MedImageLoader attribute) (multi_med_image_ml.Records.ImageRecord attribute) channels_first (multi_med_image_ml.MedImageLoader.MedImageLoader attribute) (multi_med_image_ml.Records.BatchRecord attribute) check_key_to_filename() (in module multi_med_image_ml.utils) check_mem() (multi_med_image_ml.Records.AllRecords method) checkpoint_dir (multi_med_image_ml.MultiInputTester.MultiInputTester attribute) (multi_med_image_ml.MultiInputTrainer.MultiInputTrainer attribute) class_balance() (in module multi_med_image_ml.utils) Classifier (class in multi_med_image_ml.models) classifier (multi_med_image_ml.models.MultiInputModule attribute)

classifier_freeze() (multi_med_image_ml.models.MultiInputModule method) classifier_parameters() (multi_med_image_ml.models.MultiInputModule method) clear_image() (multi_med_image_ml.Records.ImageRecord method) clear_images() (multi_med_image_ml.Records.AllRecords method) columns (multi_med_image_ml.DataBaseWrapper.DataBaseWrapper attribute) compile_dicom() (in module multi_med_image_ml.utils) compile_dicom_folder() (in module multi_med_image_ml.utils) compile_dicom_py() (in module multi_med_image_ml.utils) confounds (multi_med_image_ml.DataBaseWrapper.DataBaseWrapper attribute) (multi_med_image_ml.MedImageLoader.MedImageLoader attribute) cpu() (multi_med_image_ml.models.MultiInputModule method) (multi_med_image_ml.models.Regressor method) cuda() (multi_med_image_ml.models.MultiInputModule method) (multi_med_image_ml.models.Regressor method) cur_mem (multi_med_image_ml.Records.AllRecords attribute)

D

database (multi_med_image_ml.DataBaseWrapper.DataBaseWrapper attribute) (multi_med_image_ml.MedImageLoader.MedImageLoader attribute) (multi_med_image_ml.MultiInputTester.MultiInputTester attribute) (multi_med_image_ml.Records.ImageRecord attribute) database_key (multi_med_image_ml.MultiInputTester.MultiInputTester attribute) DataBaseWrapper (class in multi_med_image_ml.DataBaseWrapper) date_sorter() (in module multi_med_image_ml.utils) Decoder (class in multi_med_image_ml.models) Decoder1D (class in multi_med_image_ml.models)

determine_random_partition() (in module multi_med_image_ml.utils) determine_random_partition2() (in module multi_med_image_ml.utils) device (multi_med_image_ml.models.MultiInputModule attribute) diagnose_network() (in module multi_med_image_ml.utils) discretize_value() (in module multi_med_image_ml.utils) download_file_from_google_drive() (in module multi_med_image_ml.utils) download_weights() (in module multi_med_image_ml.utils) dtype (multi_med_image_ml.MedImageLoader.MedImageLoader attribute) (multi_med_image_ml.Records.BatchRecord attribute) (multi_med_image_ml.Records.ImageRecord attribute)

E

encode_age (multi_med_image_ml.models.MultiInputModule attribute) encode_static_inputs() (in module multi_med_image_ml.utils) Encoder (class in multi_med_image_ml.models) encoder (multi_med_image_ml.models.MultiInputModule attribute)

Encoder1D (class in multi_med_image_ml.models) EnsembleModel (class in multi_med_image_ml.models) equal_terms() (in module multi_med_image_ml.utils) exam_date (multi_med_image_ml.Records.ImageRecord attribute) extra_info_list (multi_med_image_ml.Records.ImageRecord attribute)

F

file() (multi_med_image_ml.Records.FileLookup method) file_record_name (multi_med_image_ml.MedImageLoader.MedImageLoader attribute) FileLookup (class in multi_med_image_ml.Records) filename (multi_med_image_ml.DataBaseWrapper.DataBaseWrapper attribute) (multi_med_image_ml.Records.ImageRecord attribute) forward() (multi_med_image_ml.models.AutoEncoder1D method) (multi_med_image_ml.models.Classifier method) (multi_med_image_ml.models.Decoder method) (multi_med_image_ml.models.Decoder1D method) (multi_med_image_ml.models.Encoder method) (multi_med_image_ml.models.Encoder1D method) (multi_med_image_ml.models.EnsembleModel method) (multi_med_image_ml.models.MultiInputModule method) (multi_med_image_ml.models.Regressor method) (multi_med_image_ml.models.Reshape method) (multi_med_image_ml.models.VAE method)

forward_ensemble() (multi_med_image_ml.models.MultiInputModule method)

G

get() (multi_med_image_ml.Records.AllRecords method) get_activations() (multi_med_image_ml.models.MultiInputModule method) get_activations_gradient() (multi_med_image_ml.models.MultiInputModule method) get_age_arr() (in module multi_med_image_ml.models) get_age_encoding() (in module multi_med_image_ml.models) get_balanced_filename_list() (in module multi_med_image_ml.utils) get_birth_date() (multi_med_image_ml.DataBaseWrapper.DataBaseWrapper method) (multi_med_image_ml.Records.Record method) get_birth_dates() (multi_med_image_ml.Records.BatchRecord method) get_C() (multi_med_image_ml.Records.BatchRecord method) (multi_med_image_ml.Records.ImageRecord method) get_C_dud() (multi_med_image_ml.Records.BatchRecord method) (multi_med_image_ml.Records.ImageRecord method) get_class_selection() (in module multi_med_image_ml.utils) get_confirm_token() (in module multi_med_image_ml.utils) get_confound_encode() (multi_med_image_ml.DataBaseWrapper.DataBaseWrapper method) get_data_from_filenames() (in module multi_med_image_ml.utils) get_dim_str() (in module multi_med_image_ml.utils) get_exam_date() (multi_med_image_ml.DataBaseWrapper.DataBaseWrapper method) (multi_med_image_ml.Records.Record method) get_exam_dates() (multi_med_image_ml.Records.BatchRecord method) get_file_list() (in module multi_med_image_ml.utils) (multi_med_image_ml.DataBaseWrapper.DataBaseWrapper method) (multi_med_image_ml.MedImageLoader.MedImageLoader method) get_file_list_from_list() (in module multi_med_image_ml.utils)

get_file_list_from_str() (in module multi_med_image_ml.utils) get_first_n_primes() (in module multi_med_image_ml.utils) get_ID() (multi_med_image_ml.DataBaseWrapper.DataBaseWrapper method) (multi_med_image_ml.Records.Record method) get_image_type() (multi_med_image_ml.Records.ImageRecord method) get_label_encode() (multi_med_image_ml.DataBaseWrapper.DataBaseWrapper method) get_lr() (in module multi_med_image_ml.utils) get_mem() (multi_med_image_ml.Records.AllRecords method) (multi_med_image_ml.Records.ImageRecord method) get_multilabel_acc() (in module multi_med_image_ml.utils) get_none_array() (in module multi_med_image_ml.utils) get_prime_form() (in module multi_med_image_ml.utils) get_record() (multi_med_image_ml.Records.PatientRecord method) get_records() (multi_med_image_ml.Records.PatientRecord method) get_static_inputs() (multi_med_image_ml.Records.BatchRecord method) (multi_med_image_ml.Records.Record method) get_text_records() (multi_med_image_ml.Records.BatchRecord method) get_time_str() (multi_med_image_ml.MultiInputTrainer.MultiInputTrainer method) get_X() (multi_med_image_ml.Records.BatchRecord method) (multi_med_image_ml.Records.ImageRecord method) get_X_files() (multi_med_image_ml.Records.BatchRecord method) (multi_med_image_ml.Records.ImageRecord method) get_Y() (multi_med_image_ml.Records.BatchRecord method) (multi_med_image_ml.Records.ImageRecord method) gpu_ids (multi_med_image_ml.Records.BatchRecord attribute) grad_cam() (multi_med_image_ml.MultiInputTester.MultiInputTester method)

H

has() (multi_med_image_ml.Records.AllRecords method)

has_im() (multi_med_image_ml.DataBaseWrapper.DataBaseWrapper method) hidden_batch_predictions() (in module multi_med_image_ml.utils)

I

image (multi_med_image_ml.Records.ImageRecord attribute) image_dict (multi_med_image_ml.Records.AllRecords attribute) image_records (multi_med_image_ml.Records.BatchRecord attribute) ImageRecord (class in multi_med_image_ml.Records) in_val_ranges() (multi_med_image_ml.DataBaseWrapper.DataBaseWrapper method) include_inds (multi_med_image_ml.MultiInputTester.MultiInputTester attribute) index (multi_med_image_ml.MultiInputTrainer.MultiInputTrainer attribute)

integrate_arrs() (in module multi_med_image_ml.utils) integrate_arrs_none() (in module multi_med_image_ml.utils) is_dicom() (in module multi_med_image_ml.utils) is_float() (in module multi_med_image_ml.utils) is_image_file() (in module multi_med_image_ml.utils) is_list_str() (in module multi_med_image_ml.utils) is_nan() (in module multi_med_image_ml.utils)

J

jdict (multi_med_image_ml.DataBaseWrapper.DataBaseWrapper attribute)

json_file (multi_med_image_ml.Records.ImageRecord attribute)

K

key() (multi_med_image_ml.Records.FileLookup method) key_to_filename (multi_med_image_ml.DataBaseWrapper.DataBaseWrapper attribute) (multi_med_image_ml.MedImageLoader.MedImageLoader attribute)

key_to_filename_default() (in module multi_med_image_ml.MedImageLoader) (in module multi_med_image_ml.utils)

L

label (multi_med_image_ml.MedImageLoader.MedImageLoader attribute) label_to_community() (in module multi_med_image_ml.utils) labels (multi_med_image_ml.DataBaseWrapper.DataBaseWrapper attribute) latent_dim (multi_med_image_ml.models.MultiInputModule attribute) list_to_str() (in module multi_med_image_ml.utils) load_extra_info() (multi_med_image_ml.Records.Record method) load_image_stack() (multi_med_image_ml.MedImageLoader.MedImageLoader method) load_state_dict() (multi_med_image_ml.models.MultiInputModule method) (multi_med_image_ml.models.Regressor method)

loaded (multi_med_image_ml.Records.ImageRecord attribute) loc_val() (multi_med_image_ml.DataBaseWrapper.DataBaseWrapper method) log_time() (multi_med_image_ml.MultiInputTrainer.MultiInputTrainer method) loop() (multi_med_image_ml.MultiInputTester.MultiInputTester method) (multi_med_image_ml.MultiInputTrainer.MultiInputTrainer method) loss_function (multi_med_image_ml.MultiInputTrainer.MultiInputTrainer attribute) loss_image_dir (multi_med_image_ml.MultiInputTrainer.MultiInputTrainer attribute) lr (multi_med_image_ml.MultiInputTrainer.MultiInputTrainer attribute)

M

match_confounds (multi_med_image_ml.MedImageLoader.MedImageLoader attribute) MedImageLoader (class in multi_med_image_ml.MedImageLoader) mem_limit (multi_med_image_ml.Records.AllRecords attribute) min_pids (multi_med_image_ml.MultiInputTester.MultiInputTester attribute) mod_meas() (in module multi_med_image_ml.utils) model (multi_med_image_ml.MultiInputTester.MultiInputTester attribute) (multi_med_image_ml.MultiInputTrainer.MultiInputTrainer attribute) module multi_med_image_ml multi_med_image_ml.DataBaseWrapper multi_med_image_ml.MedImageLoader multi_med_image_ml.models multi_med_image_ml.MultiInputTester multi_med_image_ml.MultiInputTrainer multi_med_image_ml.Records multi_med_image_ml.utils multi_mannwhitneyu() (in module multi_med_image_ml.utils) multi_med_image_ml module

multi_med_image_ml.DataBaseWrapper module multi_med_image_ml.MedImageLoader module multi_med_image_ml.models module multi_med_image_ml.MultiInputTester module multi_med_image_ml.MultiInputTrainer module multi_med_image_ml.Records module multi_med_image_ml.utils module MultiInputModule (class in multi_med_image_ml.models) MultiInputTester (class in multi_med_image_ml.MultiInputTester) MultiInputTrainer (class in multi_med_image_ml.MultiInputTrainer)

N

n_dyn_inputs (multi_med_image_ml.MedImageLoader.MedImageLoader attribute) (multi_med_image_ml.models.MultiInputModule attribute) n_stat_inputs (multi_med_image_ml.models.MultiInputModule attribute) name (multi_med_image_ml.MultiInputTester.MultiInputTester attribute) (multi_med_image_ml.MultiInputTrainer.MultiInputTrainer attribute) name() (multi_med_image_ml.MedImageLoader.MedImageLoader method) (multi_med_image_ml.Records.BatchRecord method)

nifti_to_np() (in module multi_med_image_ml.utils) not_temp() (in module multi_med_image_ml.utils) NotEnoughPatients npy_file (multi_med_image_ml.Records.ImageRecord attribute), [1] npy_file() (multi_med_image_ml.Records.FileLookup method) num_training_samples (multi_med_image_ml.models.MultiInputModule attribute)

O

obj_size (multi_med_image_ml.Records.AllRecords attribute) one_step (multi_med_image_ml.MultiInputTrainer.MultiInputTrainer attribute) optimizer (multi_med_image_ml.MultiInputTrainer.MultiInputTrainer attribute) optimizer_reg (multi_med_image_ml.MultiInputTrainer.MultiInputTrainer attribute)

out_dataframe() (multi_med_image_ml.DataBaseWrapper.DataBaseWrapper method) out_grad_cam_groups() (multi_med_image_ml.MultiInputTester.MultiInputTester method) out_record_folder (multi_med_image_ml.MultiInputTester.MultiInputTester attribute) output_test() (in module multi_med_image_ml.utils)

P

pandas_cache (multi_med_image_ml.MedImageLoader.MedImageLoader attribute) parameters() (multi_med_image_ml.models.Classifier method) (multi_med_image_ml.models.Encoder method) (multi_med_image_ml.models.Regressor method) parse_date() (multi_med_image_ml.DataBaseWrapper.DataBaseWrapper method) parsedate() (in module multi_med_image_ml.utils)

PatientRecord (class in multi_med_image_ml.Records) pca_analysis() (multi_med_image_ml.MultiInputTester.MultiInputTester method) pid (multi_med_image_ml.Records.PatientRecord attribute) plot() (multi_med_image_ml.MultiInputTester.MultiInputTester method) precedence (multi_med_image_ml.MedImageLoader.MedImageLoader attribute) prime() (in module multi_med_image_ml.utils) print_numpy() (in module multi_med_image_ml.utils)

R

read_encodings() (multi_med_image_ml.MultiInputTester.MultiInputTester method) read_image() (multi_med_image_ml.Records.ImageRecord method) read_json() (multi_med_image_ml.MultiInputTester.MultiInputTester method) read_record() (multi_med_image_ml.MedImageLoader.MedImageLoader method) recompute_selection_ratios() (in module multi_med_image_ml.utils) Record (class in multi_med_image_ml.Records) record() (multi_med_image_ml.MedImageLoader.MedImageLoader method) record_encodings() (multi_med_image_ml.MultiInputTester.MultiInputTester method)

Regressor (class in multi_med_image_ml.models) regressor (multi_med_image_ml.models.MultiInputModule attribute) regressor_freeze() (multi_med_image_ml.models.MultiInputModule method) remove_uncertain (multi_med_image_ml.models.MultiInputModule attribute) reset_parameters() (multi_med_image_ml.models.VAE method) reset_time() (multi_med_image_ml.MultiInputTrainer.MultiInputTrainer method) Reshape (class in multi_med_image_ml.models) resize_np() (in module multi_med_image_ml.utils) rotate_labels() (multi_med_image_ml.MedImageLoader.MedImageLoader method)

S

same_patients (multi_med_image_ml.MultiInputTester.MultiInputTester attribute) save_encodings() (multi_med_image_ml.MultiInputTester.MultiInputTester method) save_image() (in module multi_med_image_ml.utils) save_latest_freq (multi_med_image_ml.MultiInputTrainer.MultiInputTrainer attribute) save_ram (multi_med_image_ml.MedImageLoader.MedImageLoader attribute) save_response_content() (in module multi_med_image_ml.utils) separate_set() (in module multi_med_image_ml.utils) shift_order() (multi_med_image_ml.Records.BatchRecord method) sort_order() (multi_med_image_ml.Records.BatchRecord method)

stack_list_by_label() (multi_med_image_ml.DataBaseWrapper.DataBaseWrapper method) state_dict() (multi_med_image_ml.models.MultiInputModule method) (multi_med_image_ml.models.Regressor method) static_dropout (multi_med_image_ml.models.MultiInputModule attribute) static_input_res (multi_med_image_ml.Records.ImageRecord attribute) static_inputs (multi_med_image_ml.MedImageLoader.MedImageLoader attribute) (multi_med_image_ml.Records.ImageRecord attribute) static_record (multi_med_image_ml.models.MultiInputModule attribute) str_to_list() (in module multi_med_image_ml.utils) switch_stack() (multi_med_image_ml.MedImageLoader.MedImageLoader method)

T

tensor2im() (in module multi_med_image_ml.utils) test() (multi_med_image_ml.MultiInputTrainer.MultiInputTrainer method) test_all() (in module multi_med_image_ml.utils) test_name (multi_med_image_ml.MultiInputTester.MultiInputTester attribute) text_to_bin() (in module multi_med_image_ml.utils) TextRecord() (in module multi_med_image_ml.Records) time_index() (in module multi_med_image_ml.models) times_called (multi_med_image_ml.Records.ImageRecord attribute) tl() (multi_med_image_ml.MedImageLoader.MedImageLoader method) top_not_mean (multi_med_image_ml.MultiInputTester.MultiInputTester attribute)

training (multi_med_image_ml.models.AutoEncoder1D attribute) (multi_med_image_ml.models.Classifier attribute) (multi_med_image_ml.models.Decoder attribute) (multi_med_image_ml.models.Decoder1D attribute) (multi_med_image_ml.models.Encoder attribute) (multi_med_image_ml.models.Encoder1D attribute) (multi_med_image_ml.models.EnsembleModel attribute) (multi_med_image_ml.models.MultiInputModule attribute) (multi_med_image_ml.models.Regressor attribute) (multi_med_image_ml.models.Reshape attribute) (multi_med_image_ml.models.VAE attribute)

U

use_attn (multi_med_image_ml.models.MultiInputModule attribute)

V

VAE (class in multi_med_image_ml.models) val_ranges (multi_med_image_ml.DataBaseWrapper.DataBaseWrapper attribute) (multi_med_image_ml.MedImageLoader.MedImageLoader attribute)

validate_database() (in module multi_med_image_ml.utils) variational (multi_med_image_ml.models.MultiInputModule attribute) verbose (multi_med_image_ml.MultiInputTrainer.MultiInputTrainer attribute)

W

weights (multi_med_image_ml.models.MultiInputModule attribute)

X

x_axis_opts (multi_med_image_ml.MultiInputTester.MultiInputTester attribute) X_dim (multi_med_image_ml.DataBaseWrapper.DataBaseWrapper attribute) (multi_med_image_ml.MedImageLoader.MedImageLoader attribute) (multi_med_image_ml.Records.ImageRecord attribute)

Y

Y (multi_med_image_ml.Records.ImageRecord attribute) Y_dim (multi_med_image_ml.MedImageLoader.MedImageLoader attribute) (multi_med_image_ml.models.MultiInputModule attribute) (multi_med_image_ml.Records.ImageRecord attribute)

y_on_c (multi_med_image_ml.Records.ImageRecord attribute) YC_conv() (in module multi_med_image_ml.utils)