Github: https://github.com/Medial-EarlySign/MR_Tools

Medial EarlySign ETL documentation

Contents:

• ETL_Infra data retrieval
  • ETL_Infra.data_fetcher.db_fetcher module
    • DB_Access
    • db_fetcher()
  • ETL_Infra.data_fetcher.files_fetcher module
    • big_files_fetcher()
    • files_fetcher()
    • list_directory_files()
• ETL_Infra package
  • ETL_Infra.etl_process module
    • create_train_signal()
    • finish_prepare_load()
    • generate_labs_mapping_and_units_config()
    • map_and_fix_units()
    • prepare_dicts()
    • prepare_final_signals()
  • ETL_Infra.plot_graph module
    • get_plotly_js()
    • plot_graph()
  • ETL_Infra.etl_unit_conversions module
    • SuggestionResult
      • SuggestionResult.bias
      • SuggestionResult.current_median
      • SuggestionResult.description
      • SuggestionResult.distance
      • SuggestionResult.expected_median
      • SuggestionResult.factor
      • SuggestionResult.group_size
      • SuggestionResult.opposite_transformation
      • SuggestionResult.target_unit
    • find_best_unit_suggestion()
    • find_best_unit_suggestion_to_group()
    • try_get_quantile()

AlgoMarker API documentation

Contents:

• AlgoMarker package
  • AlgoMarker module
    • AlgoMarker
      • AlgoMarker.calculate()
      • AlgoMarker.discovery()
      • AlgoMarker.dispose()
      • AlgoMarker.clear_data()
      • AlgoMarker.add_data()
      • AlgoMarker.add_data()
      • AlgoMarker.calculate()
      • AlgoMarker.clear_data()
      • AlgoMarker.create_request_json()
      • AlgoMarker.discovery()
      • AlgoMarker.dispose()
      • AlgoMarker.get_name()

MedPython API documentation

Contents:

• MedPython package
  • MedPython module
    • Bootstrap
      • Bootstrap.MEDPY_GET_ROC_max_diff_working_point()
      • Bootstrap.MEDPY_GET_ROC_score_bins()
      • Bootstrap.MEDPY_GET_ROC_score_min_samples()
      • Bootstrap.MEDPY_GET_ROC_score_resolution()
      • Bootstrap.MEDPY_GET_ROC_use_score_working_points()
      • Bootstrap.MEDPY_GET_ROC_working_point_FPR()
      • Bootstrap.MEDPY_GET_ROC_working_point_PR()
      • Bootstrap.MEDPY_GET_ROC_working_point_SENS()
      • Bootstrap.MEDPY_GET_ROC_working_point_Score()
      • Bootstrap.MEDPY_GET_ROC_working_point_TOPN()
      • Bootstrap.MEDPY_GET_nbootstrap()
      • Bootstrap.MEDPY_GET_sample_per_pid()
      • Bootstrap.MEDPY_SET_ROC_max_diff_working_point()
      • Bootstrap.MEDPY_SET_ROC_score_bins()
      • Bootstrap.MEDPY_SET_ROC_score_min_samples()
      • Bootstrap.MEDPY_SET_ROC_score_resolution()
      • Bootstrap.MEDPY_SET_ROC_use_score_working_points()
      • Bootstrap.MEDPY_SET_ROC_working_point_FPR()
      • Bootstrap.MEDPY_SET_ROC_working_point_PR()
      • Bootstrap.MEDPY_SET_ROC_working_point_SENS()
      • Bootstrap.MEDPY_SET_ROC_working_point_Score()
      • Bootstrap.MEDPY_SET_ROC_working_point_TOPN()
      • Bootstrap.MEDPY_SET_nbootstrap()
      • Bootstrap.MEDPY_SET_sample_per_pid()
      • Bootstrap.ROC_max_diff_working_point
      • Bootstrap.ROC_score_bins
      • Bootstrap.ROC_score_min_samples
      • Bootstrap.ROC_score_resolution
      • Bootstrap.ROC_use_score_working_points
      • Bootstrap.ROC_working_point_FPR
      • Bootstrap.ROC_working_point_PR
      • Bootstrap.ROC_working_point_SENS
      • Bootstrap.ROC_working_point_Score
      • Bootstrap.ROC_working_point_TOPN
      • Bootstrap.bootstrap_cohort()
      • Bootstrap.get_cohort_from_arg()
      • Bootstrap.init_from_str()
      • Bootstrap.nbootstrap
      • Bootstrap.parse_cohort_file()
      • Bootstrap.parse_cohort_line()
      • Bootstrap.sample_per_pid
      • Bootstrap.thisown
    • CommonLib
      • CommonLib.print_auc_performance()
      • CommonLib.read_predictor_from_file()
      • CommonLib.shuffleMatrix()
      • CommonLib.thisown
    • Dictionary
      • Dictionary.get_members_to_all_sets()
      • Dictionary.id()
      • Dictionary.name()
      • Dictionary.prep_sets_lookup_table()
      • Dictionary.section_id()
      • Dictionary.thisown
    • FeatureAttr
      • FeatureAttr.MEDPY_GET_denorm_mean()
      • FeatureAttr.MEDPY_GET_denorm_sdv()
      • FeatureAttr.MEDPY_GET_imputed()
      • FeatureAttr.MEDPY_GET_normalized()
      • FeatureAttr.MEDPY_SET_denorm_mean()
      • FeatureAttr.MEDPY_SET_denorm_sdv()
      • FeatureAttr.MEDPY_SET_imputed()
      • FeatureAttr.MEDPY_SET_normalized()
      • FeatureAttr.asSerializable()
      • FeatureAttr.denorm_mean
      • FeatureAttr.denorm_sdv
      • FeatureAttr.imputed
      • FeatureAttr.normalized
      • FeatureAttr.thisown
    • Features
      • Features.MEDPY_GET_attributes()
      • Features.MEDPY_GET_data()
      • Features.MEDPY_GET_global_serial_id_cnt()
      • Features.MEDPY_GET_pid_pos_len()
      • Features.MEDPY_GET_samples()
      • Features.MEDPY_GET_tags()
      • Features.MEDPY_GET_time_unit()
      • Features.MEDPY_GET_weights()
      • Features.MEDPY_SET_global_serial_id_cnt()
      • Features.MEDPY_SET_time_unit()
      • Features.append_samples()
      • Features.asSerializable()
      • Features.attributes
      • Features.clear()
      • Features.data
      • Features.filter()
      • Features.get_as_matrix()
      • Features.get_crc()
      • Features.get_feature_names()
      • Features.get_max_serial_id_cnt()
      • Features.get_pid_len()
      • Features.get_pid_pos()
      • Features.get_samples()
      • Features.global_serial_id_cnt
      • Features.init_all_samples()
      • Features.init_pid_pos_len()
      • Features.insert_samples()
      • Features.pid_pos_len
      • Features.print_csv()
      • Features.read_from_csv_mat()
      • Features.samples
      • Features.set_as_matrix()
      • Features.set_time_unit()
      • Features.split_by_fold()
      • Features.tags
      • Features.thisown
      • Features.time_unit
      • Features.version()
      • Features.weights
      • Features.write_as_csv_mat()
    • IdSamples
      • IdSamples.MEDPY_GET_id()
      • IdSamples.MEDPY_GET_samples()
      • IdSamples.MEDPY_GET_split()
      • IdSamples.MEDPY_SET_id()
      • IdSamples.MEDPY_SET_split()
      • IdSamples.asSerializable()
      • IdSamples.id
      • IdSamples.same_as()
      • IdSamples.samples
      • IdSamples.set_split()
      • IdSamples.split
      • IdSamples.thisown
    • Logger
      • Logger.add_file()
      • Logger.init_all_files()
      • Logger.init_all_levels()
      • Logger.init_file()
      • Logger.init_level()
      • Logger.init_out()
      • Logger.thisown
    • Mat
      • Mat.MEDPY_GET_Normalize_Cols()
      • Mat.MEDPY_GET_Normalize_Rows()
      • Mat.MEDPY_GET_avg()
      • Mat.MEDPY_GET_missing_value()
      • Mat.MEDPY_GET_ncols()
      • Mat.MEDPY_GET_normalized_flag()
      • Mat.MEDPY_GET_nrows()
      • Mat.MEDPY_GET_row_ids()
      • Mat.MEDPY_GET_signals()
      • Mat.MEDPY_GET_std()
      • Mat.MEDPY_GET_transposed_flag()
      • Mat.MEDPY_SET_missing_value()
      • Mat.MEDPY_SET_normalized_flag()
      • Mat.MEDPY_SET_row_ids()
      • Mat.MEDPY_SET_transposed_flag()
      • Mat.add_cols()
      • Mat.add_rows()
      • Mat.asSerializable()
      • Mat.avg
      • Mat.clear()
      • Mat.get_col()
      • Mat.get_cols_avg_std()
      • Mat.get_numpy_copy()
      • Mat.get_numpy_view_unsafe()
      • Mat.get_row()
      • Mat.get_sub_mat()
      • Mat.get_sub_mat_by_flags()
      • Mat.is_valid()
      • Mat.load()
      • Mat.load_numpy()
      • Mat.load_transposed()
      • Mat.missing_value
      • Mat.ncols
      • Mat.normalize()
      • Mat.normalized_flag
      • Mat.nrows
      • Mat.read_from_bin_file()
      • Mat.read_from_csv_file()
      • Mat.resize()
      • Mat.row_ids
      • Mat.set_signals()
      • Mat.set_val()
      • Mat.signals
      • Mat.std
      • Mat.test()
      • Mat.thisown
      • Mat.transpose()
      • Mat.transposed_flag
      • Mat.write_to_bin_file()
      • Mat.write_to_csv_file()
      • Mat.zero()
    • MedConvert
      • MedConvert.create_index()
      • MedConvert.create_rep()
      • MedConvert.init_load_params()
      • MedConvert.thisown
    • Model
      • Model.MEDPY_GET_features()
      • Model.MEDPY_GET_verbosity()
      • Model.MEDPY_SET_verbosity()
      • Model.add_age()
      • Model.add_feature_generator()
      • Model.add_feature_generator_to_set()
      • Model.add_feature_generators()
      • Model.add_feature_processor_to_set()
      • Model.add_gender()
      • Model.add_imputers()
      • Model.add_normalizers()
      • Model.add_pre_processors_json_string_to_model()
      • Model.add_process_to_set()
      • Model.add_rep_processor_to_set()
      • Model.apply()
      • Model.apply_feature_processors()
      • Model.asSerializable()
      • Model.calc_contribs()
      • Model.calc_feature_contribs_conditional()
      • Model.clear()
      • Model.collect_and_add_virtual_signals()
      • Model.dprint_process()
      • Model.features
      • Model.filter_rep_processors()
      • Model.fit_for_repository()
      • Model.generate_all_features()
      • Model.get_all_features_names()
      • Model.get_required_signal_names()
      • Model.init_from_json_file()
      • Model.init_from_json_file_with_alterations()
      • Model.learn()
      • Model.learn_and_apply_feature_processors()
      • Model.learn_feature_generators()
      • Model.learn_feature_processors()
      • Model.learn_rep_processors()
      • Model.make_predictor()
      • Model.quick_learn_rep_processors()
      • Model.read_from_file()
      • Model.set_predictor()
      • Model.thisown
      • Model.verbosity
      • Model.write_feature_matrix()
      • Model.write_to_file()
    • ModelStage
      • ModelStage.thisown
    • PidRepository
      • PidRepository.MEDPY_GET_pids()
      • PidRepository.clear()
      • PidRepository.dict
      • PidRepository.dict_name()
      • PidRepository.dict_prep_sets_lookup_table()
      • PidRepository.dict_section_id()
      • PidRepository.export_to_numpy()
      • PidRepository.finish_load_data()
      • PidRepository.free()
      • PidRepository.get_lut_from_regex()
      • PidRepository.get_sig()
      • PidRepository.init()
      • PidRepository.is_categorical()
      • PidRepository.list_signals()
      • PidRepository.load_from_json()
      • PidRepository.load_from_json_str()
      • PidRepository.loadsig()
      • PidRepository.loadsig_pids()
      • PidRepository.pids
      • PidRepository.read_all()
      • PidRepository.read_all_i()
      • PidRepository.sig_description()
      • PidRepository.sig_id()
      • PidRepository.sig_type()
      • PidRepository.switch_to_in_mem()
      • PidRepository.thisown
      • PidRepository.uget()
    • Predictor
      • Predictor.MEDPY_GET_features_count()
      • Predictor.MEDPY_GET_model_features()
      • Predictor.MEDPY_GET_normalize_for_learn()
      • Predictor.MEDPY_GET_normalize_for_predict()
      • Predictor.MEDPY_GET_normalize_y_for_learn()
      • Predictor.MEDPY_GET_transpose_for_learn()
      • Predictor.MEDPY_GET_transpose_for_predict()
      • Predictor.MEDPY_SET_features_count()
      • Predictor.MEDPY_SET_model_features()
      • Predictor.MEDPY_SET_normalize_for_learn()
      • Predictor.MEDPY_SET_normalize_for_predict()
      • Predictor.MEDPY_SET_normalize_y_for_learn()
      • Predictor.MEDPY_SET_transpose_for_learn()
      • Predictor.MEDPY_SET_transpose_for_predict()
      • Predictor.asSerializable()
      • Predictor.features_count
      • Predictor.learn()
      • Predictor.make_predictor()
      • Predictor.model_features
      • Predictor.normalize_for_learn
      • Predictor.normalize_for_predict
      • Predictor.normalize_y_for_learn
      • Predictor.predict()
      • Predictor.thisown
      • Predictor.transpose_for_learn
      • Predictor.transpose_for_predict
      • Predictor.write_predictor_to_file()
    • PredictorTypes
      • PredictorTypes.thisown
    • Sample
      • Sample.MEDPY_GET_id()
      • Sample.MEDPY_GET_outcome()
      • Sample.MEDPY_GET_outcomeTime()
      • Sample.MEDPY_GET_prediction()
      • Sample.MEDPY_GET_split()
      • Sample.MEDPY_GET_time()
      • Sample.MEDPY_SET_id()
      • Sample.MEDPY_SET_outcome()
      • Sample.MEDPY_SET_outcomeTime()
      • Sample.MEDPY_SET_prediction()
      • Sample.MEDPY_SET_split()
      • Sample.MEDPY_SET_time()
      • Sample.asSerializable()
      • Sample.id
      • Sample.outcome
      • Sample.outcomeTime
      • Sample.parse_from_string()
      • Sample.prediction
      • Sample.print_()
      • Sample.split
      • Sample.thisown
      • Sample.time
      • Sample.write_to_string()
    • SampleFilter
      • SampleFilter.asSerializable()
      • SampleFilter.filter()
      • SampleFilter.from_name()
      • SampleFilter.from_name_params()
      • SampleFilter.from_type()
      • SampleFilter.from_type_params()
      • SampleFilter.thisown
    • SampleVectorAdaptor
      • SampleVectorAdaptor.append()
      • SampleVectorAdaptor.append_vec()
      • SampleVectorAdaptor.nSplits()
      • SampleVectorAdaptor.override_splits()
      • SampleVectorAdaptor.thisown
    • Samples
      • Samples.MEDPY_GET_idSamples()
      • Samples.MEDPY_GET_time_unit()
      • Samples.MEDPY_SET_time_unit()
      • Samples.MEDPY__from_df()
      • Samples.MEDPY__from_df_adaptor()
      • Samples.MEDPY__to_df()
      • Samples.append()
      • Samples.asSerializable()
      • Samples.clear()
      • Samples.dilute()
      • Samples.export_to_sample_vec()
      • Samples.get_attributes()
      • Samples.get_categs()
      • Samples.get_ids()
      • Samples.get_predictions_size()
      • Samples.get_preds()
      • Samples.get_str_attributes()
      • Samples.get_y()
      • Samples.idSamples
      • Samples.import_from_sample_vec()
      • Samples.insertRec()
      • Samples.insert_preds()
      • Samples.nSamples()
      • Samples.nSplits()
      • Samples.normalize()
      • Samples.override_splits()
      • Samples.read_from_bin_file()
      • Samples.read_from_file()
      • Samples.same_as()
      • Samples.set_samples()
      • Samples.sort_by_id_date()
      • Samples.split_train_test()
      • Samples.subtract()
      • Samples.thisown
      • Samples.time_unit
      • Samples.version()
      • Samples.write_to_bin_file()
      • Samples.write_to_file()
    • Sig
      • Sig.date()
      • Sig.days()
      • Sig.hours()
      • Sig.minutes()
      • Sig.months()
      • Sig.thisown
      • Sig.time()
      • Sig.timeU()
      • Sig.val()
      • Sig.years()
    • Split
      • Split.MEDPY_GET_nsplits()
      • Split.MEDPY_GET_pid2split()
      • Split.clear()
      • Split.nsplits
      • Split.pid2split
      • Split.read_from_file()
      • Split.thisown
      • Split.write_to_file()
    • Time
      • Time.thisown
    • logger_use_stdout()

Indices and tables

• Index

• Module Index

• Search Page