Index

B

BaseDataset (class in pyhealth.data.base_dataset)

C

callPredictor (class in pyhealth.models.sequence.dipole) (class in pyhealth.models.sequence.embedgru) (class in pyhealth.models.sequence.gru) (class in pyhealth.models.sequence.lstm) (class in pyhealth.models.sequence.raim) (class in pyhealth.models.sequence.retain) (class in pyhealth.models.sequence.stagenet) (class in pyhealth.models.sequence.tlstm) check_evalu_type() (in module pyhealth.evaluation.evaluator) check_expdata_dir() (in module pyhealth.utils.check) check_model_dir() (in module pyhealth.utils.check) check_parameter() (in module pyhealth.utils.utility)

clean_crr() (in module pyhealth.data.mimic_clean_methods) clean_dbp() (in module pyhealth.data.mimic_clean_methods) clean_fio2() (in module pyhealth.data.mimic_clean_methods) clean_height() (in module pyhealth.data.mimic_clean_methods) clean_lab() (in module pyhealth.data.mimic_clean_methods) clean_o2sat() (in module pyhealth.data.mimic_clean_methods) clean_sbp() (in module pyhealth.data.mimic_clean_methods) clean_temperature() (in module pyhealth.data.mimic_clean_methods) clean_weight() (in module pyhealth.data.mimic_clean_methods) CMS_Data (class in pyhealth.data.base_cms) ConcatenationAttention (class in pyhealth.models.sequence.dipole) cumax() (pyhealth.models.sequence.stagenet.callPredictor method)

D

DatasetReader (class in pyhealth.data.rnn_reader)

Dipole (class in pyhealth.models.sequence.dipole)

E

ecgdata (class in pyhealth.data.expdata_generator) EmbedGRU (class in pyhealth.models.sequence.embedgru)

evaluator() (in module pyhealth.evaluation.binaryclass) (in module pyhealth.evaluation.multilabel)

F

fit() (pyhealth.models.image.typicalcnn.TypicalCNN method) (pyhealth.models.sequence.dipole.Dipole method) (pyhealth.models.sequence.embedgru.EmbedGRU method) (pyhealth.models.sequence.gru.GRU method) (pyhealth.models.sequence.lstm.LSTM method) (pyhealth.models.sequence.raim.RAIM method) (pyhealth.models.sequence.retain.Retain method) (pyhealth.models.sequence.rf.RandomForest method) (pyhealth.models.sequence.stagenet.StageNet method) (pyhealth.models.sequence.tlstm.tLSTM method) forward() (pyhealth.models.sequence.dipole.callPredictor method) (pyhealth.models.sequence.dipole.ConcatenationAttention method) (pyhealth.models.sequence.dipole.GeneralAttention method) (pyhealth.models.sequence.dipole.LocationAttention method) (pyhealth.models.sequence.embedgru.callPredictor method) (pyhealth.models.sequence.gru.callPredictor method) (pyhealth.models.sequence.lstm.callPredictor method) (pyhealth.models.sequence.raim.callPredictor method) (pyhealth.models.sequence.raim.RaimExtract method) (pyhealth.models.sequence.retain.callPredictor method) (pyhealth.models.sequence.retain.RetainAttention method) (pyhealth.models.sequence.stagenet.callPredictor method) (pyhealth.models.sequence.tlstm.callPredictor method) (pyhealth.models.sequence.tlstm.tLSTMCell method)

func() (in module pyhealth.evaluation.evaluator)

G

GeneralAttention (class in pyhealth.models.sequence.dipole) generate_episode() (pyhealth.data.base_mimic.MIMIC_Data method) generate_episode_headers() (pyhealth.data.base_mimic.MIMIC_Data method) generate_phenotyping() (pyhealth.data.base_cms.CMS_Data method) get_avg_results() (in module pyhealth.evaluation.binaryclass) (in module pyhealth.evaluation.multilabel) get_exp_data() (pyhealth.data.expdata_generator.ecgdata method) (pyhealth.data.expdata_generator.imagedata method) (pyhealth.data.expdata_generator.sequencedata method) (pyhealth.data.expdata_generator.textdata method)

get_predict_results() (in module pyhealth.evaluation.binaryclass) get_results() (pyhealth.models.sequence.rf.RandomForest method) get_top_k_results() (in module pyhealth.evaluation.multilabel) GRU (class in pyhealth.models.sequence.gru)

I

imagedata (class in pyhealth.data.expdata_generator)

inference() (pyhealth.models.sequence.rf.RandomForest method)

L

label_check() (in module pyhealth.utils.check) load_exp_data() (pyhealth.data.expdata_generator.ecgdata method) (pyhealth.data.expdata_generator.imagedata method) (pyhealth.data.expdata_generator.sequencedata method) (pyhealth.data.expdata_generator.textdata method) load_model() (pyhealth.models.image.typicalcnn.TypicalCNN method) (pyhealth.models.sequence.dipole.Dipole method) (pyhealth.models.sequence.embedgru.EmbedGRU method) (pyhealth.models.sequence.gru.GRU method) (pyhealth.models.sequence.lstm.LSTM method) (pyhealth.models.sequence.raim.RAIM method) (pyhealth.models.sequence.retain.Retain method) (pyhealth.models.sequence.rf.RandomForest method) (pyhealth.models.sequence.stagenet.StageNet method) (pyhealth.models.sequence.tlstm.tLSTM method)

LocationAttention (class in pyhealth.models.sequence.dipole) LSTM (class in pyhealth.models.sequence.lstm)

M

make_dirs_if_not_exists() (in module pyhealth.utils.utility) MIMIC_Data (class in pyhealth.data.base_mimic) modify_commandline_options() (pyhealth.data.base_dataset.BaseDataset static method) module pyhealth.data pyhealth.data.base pyhealth.data.base_cms pyhealth.data.base_dataset pyhealth.data.base_mimic pyhealth.data.expdata_generator pyhealth.data.mimic_clean_methods pyhealth.data.rnn_reader pyhealth.evaluation pyhealth.evaluation.binaryclass pyhealth.evaluation.evaluator pyhealth.evaluation.multilabel pyhealth.models pyhealth.models.image pyhealth.models.image.typicalcnn pyhealth.models.sequence pyhealth.models.sequence.dipole pyhealth.models.sequence.embedgru pyhealth.models.sequence.gru pyhealth.models.sequence.lstm pyhealth.models.sequence.raim pyhealth.models.sequence.retain pyhealth.models.sequence.rf pyhealth.models.sequence.stagenet pyhealth.models.sequence.tlstm pyhealth.utils pyhealth.utils.check pyhealth.utils.utility pyhealth.utils.utility_parallel

P

parallel_parse_tables() (in module pyhealth.data.base_mimic) parse_admission() (pyhealth.data.base.Standard_Template method) (pyhealth.data.base_cms.CMS_Data method) (pyhealth.data.base_mimic.MIMIC_Data method) parse_event() (pyhealth.data.base_cms.CMS_Data method) (pyhealth.data.base_mimic.MIMIC_Data method) parse_icu() (pyhealth.data.base.Standard_Template method) (pyhealth.data.base_mimic.MIMIC_Data method) parse_patient() (pyhealth.data.base.Standard_Template method) (pyhealth.data.base_cms.CMS_Data method) (pyhealth.data.base_mimic.MIMIC_Data method) partition_estimators() (in module pyhealth.utils.utility_parallel) pyhealth.data module pyhealth.data.base module pyhealth.data.base_cms module pyhealth.data.base_dataset module pyhealth.data.base_mimic module pyhealth.data.expdata_generator module pyhealth.data.mimic_clean_methods module pyhealth.data.rnn_reader module pyhealth.evaluation module pyhealth.evaluation.binaryclass module pyhealth.evaluation.evaluator module pyhealth.evaluation.multilabel module

pyhealth.models module pyhealth.models.image module pyhealth.models.image.typicalcnn module pyhealth.models.sequence module pyhealth.models.sequence.dipole module pyhealth.models.sequence.embedgru module pyhealth.models.sequence.gru module pyhealth.models.sequence.lstm module pyhealth.models.sequence.raim module pyhealth.models.sequence.retain module pyhealth.models.sequence.rf module pyhealth.models.sequence.stagenet module pyhealth.models.sequence.tlstm module pyhealth.utils module pyhealth.utils.check module pyhealth.utils.utility module pyhealth.utils.utility_parallel module

R

RAIM (class in pyhealth.models.sequence.raim) RaimExtract (class in pyhealth.models.sequence.raim) RandomForest (class in pyhealth.models.sequence.rf) read_csv_to_df() (in module pyhealth.utils.utility)

read_excel_to_df() (in module pyhealth.utils.utility) reset_parameters() (pyhealth.models.sequence.tlstm.tLSTMCell method) Retain (class in pyhealth.models.sequence.retain) RetainAttention (class in pyhealth.models.sequence.retain)

S

sequencedata (class in pyhealth.data.expdata_generator) show_data() (pyhealth.data.expdata_generator.ecgdata method) (pyhealth.data.expdata_generator.imagedata method) (pyhealth.data.expdata_generator.sequencedata method) (pyhealth.data.expdata_generator.textdata method)

StageNet (class in pyhealth.models.sequence.stagenet) Standard_Template (class in pyhealth.data.base) step() (pyhealth.models.sequence.stagenet.callPredictor method)

T

textdata (class in pyhealth.data.expdata_generator) time_series_get() (in module pyhealth.data.rnn_reader) tLSTM (class in pyhealth.models.sequence.tlstm) tLSTMCell (class in pyhealth.models.sequence.tlstm) tqdm_joblib() (in module pyhealth.utils.utility_parallel) training (pyhealth.models.sequence.dipole.callPredictor attribute) (pyhealth.models.sequence.dipole.ConcatenationAttention attribute) (pyhealth.models.sequence.dipole.GeneralAttention attribute) (pyhealth.models.sequence.dipole.LocationAttention attribute) (pyhealth.models.sequence.embedgru.callPredictor attribute) (pyhealth.models.sequence.gru.callPredictor attribute) (pyhealth.models.sequence.lstm.callPredictor attribute) (pyhealth.models.sequence.raim.callPredictor attribute) (pyhealth.models.sequence.raim.RaimExtract attribute) (pyhealth.models.sequence.retain.callPredictor attribute) (pyhealth.models.sequence.retain.RetainAttention attribute) (pyhealth.models.sequence.stagenet.callPredictor attribute) (pyhealth.models.sequence.tlstm.callPredictor attribute) (pyhealth.models.sequence.tlstm.tLSTMCell attribute)

TypicalCNN (class in pyhealth.models.image.typicalcnn)

U

unfold_parallel() (in module pyhealth.utils.utility_parallel)

W

write_record() (pyhealth.data.base_mimic.MIMIC_Data method)