Index A | B | C | D | E | F | G | H | I | K | L | M | N | O | P | R | S | T | V A AdaCare (class in pyhealth.models) AdaCareLayer (class in pyhealth.models) add_event() (pyhealth.data.Patient method) (pyhealth.data.Visit method) add_token() (pyhealth.tokenizer.Vocabulary method) add_visit() (pyhealth.data.Patient method) Agent (class in pyhealth.models) AgentLayer (class in pyhealth.models) ATC (class in pyhealth.medcode) attr_dict (pyhealth.data.Event attribute) (pyhealth.data.Patient attribute) (pyhealth.data.Visit attribute) available_attributes (pyhealth.medcode.InnerMap property) available_keys (pyhealth.datasets.SampleEHRDataset property) available_tables (pyhealth.data.Patient property) (pyhealth.data.Visit property) (pyhealth.datasets.BaseEHRDataset property) B BaseEHRDataset (class in pyhealth.datasets) BaseSignalDataset (class in pyhealth.datasets) batch_decode_2d() (pyhealth.tokenizer.Tokenizer method) batch_decode_3d() (pyhealth.tokenizer.Tokenizer method) batch_encode_2d() (pyhealth.tokenizer.Tokenizer method) batch_encode_3d() (pyhealth.tokenizer.Tokenizer method) binary_metrics_fn() (in module pyhealth.metrics.binary) brier_top1() (in module pyhealth.metrics.calibration) BuildEvents() (in module pyhealth.tasks.temple_university_EEG_tasks) C cal_encoder_stat() (pyhealth.models.ContraWR method) calc_loss() (pyhealth.models.MoleRecLayer method) calculate_loss() (pyhealth.models.SafeDrugLayer method) calibrate() (pyhealth.calib.calibration.DirichletCalibration method) (pyhealth.calib.calibration.HistogramBinning method) (pyhealth.calib.calibration.KCal method) (pyhealth.calib.calibration.TemperatureScaling method) (pyhealth.calib.predictionset.FavMac method) (pyhealth.calib.predictionset.LABEL method) (pyhealth.calib.predictionset.SCRIB method) cardiology_isAD_fn() (in module pyhealth.tasks.cardiology_detect) cardiology_isAR_fn() (in module pyhealth.tasks.cardiology_detect) cardiology_isBBBFB_fn() (in module pyhealth.tasks.cardiology_detect) cardiology_isCD_fn() (in module pyhealth.tasks.cardiology_detect) cardiology_isWA_fn() (in module pyhealth.tasks.cardiology_detect) CardiologyDataset (class in pyhealth.datasets) categorize_los() (in module pyhealth.tasks.length_of_stay_prediction) CCSCM (class in pyhealth.medcode) CCSPROC (class in pyhealth.medcode) choose_action() (pyhealth.models.AgentLayer method) CNN (class in pyhealth.models) CNNLayer (class in pyhealth.models) collate_fn_dict() (in module pyhealth.datasets.utils) compute_alpha() (pyhealth.models.RETAINLayer method) compute_beta() (pyhealth.models.RETAINLayer method) compute_reconstruction_loss() (pyhealth.models.MICRONLayer static method) ConCare (class in pyhealth.models) concare_encoder() (pyhealth.models.ConCareLayer method) ConCareLayer (class in pyhealth.models) ContraWR (class in pyhealth.models) convert() (pyhealth.medcode.ATC static method) (pyhealth.medcode.InnerMap static method) convert_indices_to_tokens() (pyhealth.tokenizer.Tokenizer method) convert_signals() (in module pyhealth.tasks.temple_university_EEG_tasks) convert_tokens_to_indices() (pyhealth.tokenizer.Tokenizer method) CrossMap (class in pyhealth.medcode) cumax() (pyhealth.models.StageNetLayer method) D decoder() (pyhealth.models.VAE method) Deepr (class in pyhealth.models) DeeprLayer (class in pyhealth.models) DenseBlock (class in pyhealth.models) DenseLayer (class in pyhealth.models) DirichletCalibration (class in pyhealth.calib.calibration) discriminate() (pyhealth.models.GAN method) disparate_impact() (in module pyhealth.metrics.fairness_utils) drug_recommendation_eicu_fn() (in module pyhealth.tasks.drug_recommendation) drug_recommendation_mimic3_fn() (in module pyhealth.tasks.drug_recommendation) drug_recommendation_mimic4_fn() (in module pyhealth.tasks.drug_recommendation) drug_recommendation_omop_fn() (in module pyhealth.tasks.drug_recommendation) E ece_classwise() (in module pyhealth.metrics.calibration) ece_confidence_binary() (in module pyhealth.metrics.calibration) ece_confidence_multiclass() (in module pyhealth.metrics.calibration) EEG_events_fn() (in module pyhealth.tasks.temple_university_EEG_tasks) EEG_isAbnormal_fn() (in module pyhealth.tasks.temple_university_EEG_tasks) eICUDataset (class in pyhealth.datasets) encode_patient() (pyhealth.models.MoleRec method) encoder() (pyhealth.models.VAE method) error_overall_ps() (in module pyhealth.metrics.prediction_set) error_ps() (in module pyhealth.metrics.prediction_set) evaluate() (pyhealth.trainer.Trainer method) Event (class in pyhealth.data) event_list_dict (pyhealth.data.Visit attribute) F fairness_metrics_fn() (in module pyhealth.metrics.fairness) FavMac (class in pyhealth.calib.predictionset) fit() (pyhealth.calib.calibration.KCal method) flatten_list() (in module pyhealth.datasets.utils) forward() (pyhealth.calib.calibration.DirichletCalibration method) (pyhealth.calib.calibration.HistogramBinning method) (pyhealth.calib.calibration.KCal method) (pyhealth.calib.calibration.TemperatureScaling method) (pyhealth.calib.predictionset.FavMac method) (pyhealth.calib.predictionset.LABEL method) (pyhealth.calib.predictionset.SCRIB method) (pyhealth.models.AdaCare method) (pyhealth.models.AdaCareLayer method) (pyhealth.models.Agent method) (pyhealth.models.AgentLayer method) (pyhealth.models.CNN method) (pyhealth.models.CNNLayer method) (pyhealth.models.ConCare method) (pyhealth.models.ConCareLayer method) (pyhealth.models.ContraWR method) (pyhealth.models.Deepr method) (pyhealth.models.DeeprLayer method) (pyhealth.models.DenseLayer method) (pyhealth.models.GAMENet method) (pyhealth.models.GAMENetLayer method) (pyhealth.models.GRASP method) (pyhealth.models.GRASPLayer method) (pyhealth.models.MICRON method) (pyhealth.models.MICRONLayer method) (pyhealth.models.MLP method) (pyhealth.models.MoleRec method) (pyhealth.models.MoleRecLayer method) (pyhealth.models.ResBlock2D method) (pyhealth.models.RETAIN method) (pyhealth.models.RETAINLayer method) (pyhealth.models.RNN method) (pyhealth.models.RNNLayer method) (pyhealth.models.SafeDrug method) (pyhealth.models.SafeDrugLayer method) (pyhealth.models.SparcNet method) (pyhealth.models.StageNet method) (pyhealth.models.StageNetLayer method) (pyhealth.models.TCN method) (pyhealth.models.TCNLayer method) (pyhealth.models.Transformer method) (pyhealth.models.TransformerLayer method) (pyhealth.models.VAE method) G GAMENet (class in pyhealth.models) GAMENetLayer (class in pyhealth.models) GAN (class in pyhealth.models) generate_average_projection() (pyhealth.models.MoleRec method) generate_ddi_adj() (pyhealth.models.GAMENet method) (pyhealth.models.MICRON method) (pyhealth.models.MoleRec method) (pyhealth.models.SafeDrug method) generate_ehr_adj() (pyhealth.models.GAMENet method) generate_fake() (pyhealth.models.GAN method) generate_mask_H() (pyhealth.models.SafeDrug method) generate_molecule_info() (pyhealth.models.SafeDrug method) generate_smiles_list() (pyhealth.models.MoleRec method) (pyhealth.models.SafeDrug method) generate_substructure_mask() (pyhealth.models.MoleRec method) get_all_tokens() (pyhealth.datasets.SampleBaseDataset method) get_ancestors() (pyhealth.medcode.InnerMap method) get_code_list() (pyhealth.data.Visit method) get_dataloader() (in module pyhealth.datasets.utils) get_ddi() (pyhealth.medcode.ATC method) get_descendants() (pyhealth.medcode.InnerMap method) get_distribution_tokens() (pyhealth.datasets.SampleEHRDataset method) get_event_list() (pyhealth.data.Visit method) get_loss() (pyhealth.models.Agent method) get_padding_index() (pyhealth.tokenizer.Tokenizer method) get_visit_by_id() (pyhealth.data.Patient method) get_visit_by_index() (pyhealth.data.Patient method) get_vocabulary_size() (pyhealth.tokenizer.Tokenizer method) GRASP (class in pyhealth.models) grasp_encoder() (pyhealth.models.GRASPLayer method) GRASPLayer (class in pyhealth.models) gumbel_softmax() (pyhealth.models.GRASPLayer method) gumbel_softmax_sample() (pyhealth.models.GRASPLayer method) H hash_str() (in module pyhealth.datasets.utils) HistogramBinning (class in pyhealth.calib.calibration) I ICD10CM (class in pyhealth.medcode) ICD10PROC (class in pyhealth.medcode) ICD9CM (class in pyhealth.medcode) ICD9PROC (class in pyhealth.medcode) index_to_visit_id (pyhealth.data.Patient attribute) inference() (pyhealth.trainer.Trainer method) info() (pyhealth.datasets.BaseEHRDataset static method) (pyhealth.datasets.BaseSignalDataset static method) InnerMap (class in pyhealth.medcode) input_info (pyhealth.datasets.SampleEHRDataset attribute) is_homo_list() (in module pyhealth.datasets.utils) ISRUCDataset (class in pyhealth.datasets) K KCal (class in pyhealth.calib.calibration) L LABEL (class in pyhealth.calib.predictionset) label_tokenizer (pyhealth.models.SparcNet attribute) length_of_stay_prediction_eicu_fn() (in module pyhealth.tasks.length_of_stay_prediction) length_of_stay_prediction_mimic3_fn() (in module pyhealth.tasks.length_of_stay_prediction) length_of_stay_prediction_mimic4_fn() (in module pyhealth.tasks.length_of_stay_prediction) length_of_stay_prediction_omop_fn() (in module pyhealth.tasks.length_of_stay_prediction) list_nested_levels() (in module pyhealth.datasets.utils) load() (pyhealth.medcode.CrossMap class method) (pyhealth.medcode.InnerMap class method) load_ckpt() (pyhealth.trainer.Trainer method) lookup() (pyhealth.medcode.InnerMap method) loss_function() (pyhealth.models.VAE static method) M map() (pyhealth.medcode.CrossMap method) mean_pooling() (pyhealth.models.MLP static method) MICRON (class in pyhealth.models) MICRONLayer (class in pyhealth.models) MIMIC3Dataset (class in pyhealth.datasets) MIMIC4Dataset (class in pyhealth.datasets) MIMICExtractDataset (class in pyhealth.datasets) miscoverage_overall_ps() (in module pyhealth.metrics.prediction_set) miscoverage_ps() (in module pyhealth.metrics.prediction_set) MLP (class in pyhealth.models) module pyhealth.calib.calibration pyhealth.calib.predictionset pyhealth.datasets.splitter pyhealth.datasets.utils pyhealth.metrics.calibration pyhealth.metrics.prediction_set pyhealth.tasks.cardiology_detect pyhealth.tasks.drug_recommendation pyhealth.tasks.length_of_stay_prediction pyhealth.tasks.mortality_prediction pyhealth.tasks.readmission_prediction pyhealth.tasks.sleep_staging pyhealth.tasks.temple_university_EEG_tasks pyhealth.tokenizer MoleRec (class in pyhealth.models) MoleRecLayer (class in pyhealth.models) mortality_prediction_eicu_fn() (in module pyhealth.tasks.mortality_prediction) mortality_prediction_eicu_fn2() (in module pyhealth.tasks.mortality_prediction) mortality_prediction_mimic3_fn() (in module pyhealth.tasks.mortality_prediction) mortality_prediction_mimic4_fn() (in module pyhealth.tasks.mortality_prediction) mortality_prediction_omop_fn() (in module pyhealth.tasks.mortality_prediction) multiclass_metrics_fn() (in module pyhealth.metrics.multiclass) multilabel_metrics_fn() (in module pyhealth.metrics.multilabel) N NDC (class in pyhealth.medcode) num_events (pyhealth.data.Visit property) O OMOPDataset (class in pyhealth.datasets) P pad() (pyhealth.models.SafeDrugLayer method) padyear() (in module pyhealth.datasets.utils) parse_admissiondx() (pyhealth.datasets.eICUDataset method) parse_basic_info() (pyhealth.datasets.eICUDataset method) (pyhealth.datasets.MIMIC3Dataset method) (pyhealth.datasets.MIMIC4Dataset method) (pyhealth.datasets.MIMICExtractDataset method) (pyhealth.datasets.OMOPDataset method) parse_c() (pyhealth.datasets.MIMICExtractDataset method) parse_chartevents() (pyhealth.datasets.MIMICExtractDataset method) parse_condition_occurrence() (pyhealth.datasets.OMOPDataset method) parse_diagnoses_icd() (pyhealth.datasets.MIMIC3Dataset method) (pyhealth.datasets.MIMIC4Dataset method) (pyhealth.datasets.MIMICExtractDataset method) parse_diagnosis() (pyhealth.datasets.eICUDataset method) parse_drug_exposure() (pyhealth.datasets.OMOPDataset method) parse_hcpcsevents() (pyhealth.datasets.MIMIC4Dataset method) parse_interventions() (pyhealth.datasets.MIMICExtractDataset method) parse_lab() (pyhealth.datasets.eICUDataset method) parse_labevents() (pyhealth.datasets.MIMIC3Dataset method) (pyhealth.datasets.MIMIC4Dataset method) (pyhealth.datasets.MIMICExtractDataset method) parse_measurement() (pyhealth.datasets.OMOPDataset method) parse_medication() (pyhealth.datasets.eICUDataset method) parse_patient_id() (pyhealth.datasets.SHHSDataset method) parse_physicalexam() (pyhealth.datasets.eICUDataset method) parse_prescriptions() (pyhealth.datasets.MIMIC3Dataset method) (pyhealth.datasets.MIMIC4Dataset method) parse_procedure_occurrence() (pyhealth.datasets.OMOPDataset method) parse_procedures_icd() (pyhealth.datasets.MIMIC3Dataset method) (pyhealth.datasets.MIMIC4Dataset method) parse_tables() (pyhealth.datasets.BaseEHRDataset method) parse_treatment() (pyhealth.datasets.eICUDataset method) parse_vitals_labs() (pyhealth.datasets.MIMICExtractDataset method) Patient (class in pyhealth.data) patient_to_index (pyhealth.datasets.CardiologyDataset attribute) (pyhealth.datasets.eICUDataset attribute) (pyhealth.datasets.MIMIC3Dataset attribute) (pyhealth.datasets.MIMIC4Dataset attribute) (pyhealth.datasets.MIMICExtractDataset attribute) (pyhealth.datasets.OMOPDataset attribute) (pyhealth.datasets.SampleEHRDataset attribute) (pyhealth.datasets.SHHSDataset attribute) (pyhealth.datasets.SleepEDFDataset attribute) (pyhealth.datasets.TUABDataset attribute) (pyhealth.datasets.TUEVDataset attribute) process_EEG_data() (pyhealth.datasets.CardiologyDataset method) (pyhealth.datasets.ISRUCDataset method) (pyhealth.datasets.SHHSDataset method) (pyhealth.datasets.SleepEDFDataset method) (pyhealth.datasets.TUABDataset method) (pyhealth.datasets.TUEVDataset method) pyhealth.calib.calibration module pyhealth.calib.predictionset module pyhealth.datasets.splitter module pyhealth.datasets.utils module pyhealth.metrics.calibration module pyhealth.metrics.prediction_set module pyhealth.tasks.cardiology_detect module pyhealth.tasks.drug_recommendation module pyhealth.tasks.length_of_stay_prediction module pyhealth.tasks.mortality_prediction module pyhealth.tasks.readmission_prediction module pyhealth.tasks.sleep_staging module pyhealth.tasks.temple_university_EEG_tasks module pyhealth.tokenizer module R readEDF() (in module pyhealth.tasks.temple_university_EEG_tasks) readmission_prediction_eicu_fn() (in module pyhealth.tasks.readmission_prediction) readmission_prediction_eicu_fn2() (in module pyhealth.tasks.readmission_prediction) readmission_prediction_mimic3_fn() (in module pyhealth.tasks.readmission_prediction) readmission_prediction_mimic4_fn() (in module pyhealth.tasks.readmission_prediction) readmission_prediction_omop_fn() (in module pyhealth.tasks.readmission_prediction) rejection_rate() (in module pyhealth.metrics.prediction_set) ResBlock2D (class in pyhealth.models) RETAIN (class in pyhealth.models) RETAINLayer (class in pyhealth.models) reverse_x() (pyhealth.models.RETAINLayer static method) RNN (class in pyhealth.models) RNNLayer (class in pyhealth.models) RxNorm (class in pyhealth.medcode) S SafeDrug (class in pyhealth.models) SafeDrugLayer (class in pyhealth.models) sample_gumbel() (pyhealth.models.GRASPLayer method) SampleBaseDataset (class in pyhealth.datasets) SampleEHRDataset (class in pyhealth.datasets) samples (pyhealth.datasets.CardiologyDataset attribute) (pyhealth.datasets.eICUDataset attribute) (pyhealth.datasets.MIMIC3Dataset attribute) (pyhealth.datasets.MIMIC4Dataset attribute) (pyhealth.datasets.MIMICExtractDataset attribute) (pyhealth.datasets.OMOPDataset attribute) (pyhealth.datasets.SHHSDataset attribute) (pyhealth.datasets.SleepEDFDataset attribute) (pyhealth.datasets.TUABDataset attribute) (pyhealth.datasets.TUEVDataset attribute) SampleSignalDataset (class in pyhealth.datasets) sampling() (pyhealth.models.GAN method) (pyhealth.models.VAE method) save_ckpt() (pyhealth.trainer.Trainer method) SCRIB (class in pyhealth.calib.predictionset) sensitive_attributes_from_patient_ids() (in module pyhealth.metrics.fairness_utils) set_event_list() (pyhealth.data.Visit method) set_task() (pyhealth.datasets.BaseEHRDataset method) (pyhealth.datasets.BaseSignalDataset method) SHHSDataset (class in pyhealth.datasets) size() (in module pyhealth.metrics.prediction_set) sleep_staging_isruc_fn() (in module pyhealth.tasks.sleep_staging) sleep_staging_shhs_fn() (in module pyhealth.tasks.sleep_staging) sleep_staging_sleepedf_fn() (in module pyhealth.tasks.sleep_staging) SleepEDFDataset (class in pyhealth.datasets) SparcNet (class in pyhealth.models) split_by_patient() (in module pyhealth.datasets.splitter) split_by_sample() (in module pyhealth.datasets.splitter) split_by_visit() (in module pyhealth.datasets.splitter) StageNet (class in pyhealth.models) StageNetLayer (class in pyhealth.models) standardize() (pyhealth.medcode.ICD10CM static method) (pyhealth.medcode.ICD9CM static method) (pyhealth.medcode.ICD9PROC static method) (pyhealth.medcode.InnerMap static method) stat() (pyhealth.datasets.BaseEHRDataset method) (pyhealth.datasets.BaseSignalDataset method) (pyhealth.datasets.SampleEHRDataset method) (pyhealth.datasets.SampleSignalDataset method) (pyhealth.medcode.InnerMap method) statistical_parity_difference() (in module pyhealth.metrics.fairness_utils) step() (pyhealth.models.StageNetLayer method) strptime() (in module pyhealth.datasets.utils) sum_pooling() (pyhealth.models.MLP static method) T task (pyhealth.datasets.CardiologyDataset attribute) (pyhealth.datasets.eICUDataset attribute) (pyhealth.datasets.MIMIC3Dataset attribute) (pyhealth.datasets.MIMIC4Dataset attribute) (pyhealth.datasets.MIMICExtractDataset attribute) (pyhealth.datasets.OMOPDataset attribute) (pyhealth.datasets.SHHSDataset attribute) (pyhealth.datasets.SleepEDFDataset attribute) (pyhealth.datasets.TUABDataset attribute) (pyhealth.datasets.TUEVDataset attribute) TCN (class in pyhealth.models) TCNLayer (class in pyhealth.models) TemperatureScaling (class in pyhealth.calib.calibration) Tokenizer (class in pyhealth.tokenizer) torch_stft() (pyhealth.models.ContraWR method) train() (pyhealth.trainer.Trainer method) Trainer (class in pyhealth.trainer) training (pyhealth.models.AdaCare attribute) (pyhealth.models.AdaCareLayer attribute) (pyhealth.models.Agent attribute) (pyhealth.models.AgentLayer attribute) (pyhealth.models.CNN attribute) (pyhealth.models.CNNLayer attribute) (pyhealth.models.ConCare attribute) (pyhealth.models.ConCareLayer attribute) (pyhealth.models.ContraWR attribute) (pyhealth.models.Deepr attribute) (pyhealth.models.DeeprLayer attribute) (pyhealth.models.GAMENet attribute) (pyhealth.models.GAMENetLayer attribute) (pyhealth.models.GAN attribute) (pyhealth.models.GRASP attribute) (pyhealth.models.GRASPLayer attribute) (pyhealth.models.MICRON attribute) (pyhealth.models.MICRONLayer attribute) (pyhealth.models.MLP attribute) (pyhealth.models.MoleRec attribute) (pyhealth.models.MoleRecLayer attribute) (pyhealth.models.ResBlock2D attribute) (pyhealth.models.RETAIN attribute) (pyhealth.models.RETAINLayer attribute) (pyhealth.models.RNN attribute) (pyhealth.models.RNNLayer attribute) (pyhealth.models.SafeDrug attribute) (pyhealth.models.SafeDrugLayer attribute) (pyhealth.models.SparcNet attribute) (pyhealth.models.StageNet attribute) (pyhealth.models.StageNetLayer attribute) (pyhealth.models.TCN attribute) (pyhealth.models.TCNLayer attribute) (pyhealth.models.Transformer attribute) (pyhealth.models.TransformerLayer attribute) (pyhealth.models.VAE attribute) Transformer (class in pyhealth.models) TransformerLayer (class in pyhealth.models) TransitionLayer (class in pyhealth.models) TUABDataset (class in pyhealth.datasets) TUEVDataset (class in pyhealth.datasets) V VAE (class in pyhealth.models) Visit (class in pyhealth.data) visit_to_index (pyhealth.datasets.CardiologyDataset attribute) (pyhealth.datasets.eICUDataset attribute) (pyhealth.datasets.MIMIC3Dataset attribute) (pyhealth.datasets.MIMIC4Dataset attribute) (pyhealth.datasets.MIMICExtractDataset attribute) (pyhealth.datasets.OMOPDataset attribute) (pyhealth.datasets.SampleEHRDataset attribute) (pyhealth.datasets.SHHSDataset attribute) (pyhealth.datasets.SleepEDFDataset attribute) (pyhealth.datasets.TUABDataset attribute) (pyhealth.datasets.TUEVDataset attribute) visits (pyhealth.data.Patient attribute) Vocabulary (class in pyhealth.tokenizer)