skripts package

Subpackages

• skripts.FIA package
  • Submodules
  • skripts.FIA.FIA module
    • accurate_mass_search()
    • align_retention_times()
    • annotate_consensus_map_df()
    • assign_feature_maps_polarity()
    • batch_download()
    • bin_df_stepwise()
    • bin_df_stepwise_batch()
    • bits_to_bytes()
    • build_directory()
    • centroid_batch()
    • centroid_experiment()
    • check_ending_experiment()
    • clean_dir()
    • cluster_matlab()
    • cluster_sliding_window()
    • combine_spectra_experiments()
    • consensus_features_linking()
    • consensus_map_to_df()
    • copy_experiment()
    • define_metabolite_table()
    • deisotope_experiment()
    • deisotope_spectrum()
    • detect_adducts()
    • dynamic_plot()
    • elution_peak_detection()
    • elution_peak_detection_batch()
    • extract_feature_coord()
    • extract_from_clustering()
    • feature_detection_targeted()
    • feature_detection_untargeted()
    • feature_detection_untargeted_batch()
    • filter_consensus_map_df()
    • find_close()
    • impute_consensus_map_df()
    • join_df_by()
    • limit_experiment()
    • limit_spectrum()
    • load_experiment()
    • load_experiments()
    • load_fia_df()
    • load_name()
    • load_names_batch()
    • make_merge_dict()
    • mass_trace_detection()
    • mass_trace_detection_batch()
    • merge_batch()
    • merge_by_mz()
    • merge_compounds()
    • merge_experiment()
    • merge_experiments()
    • merge_mz_tolerance()
    • mnx_to_oms()
    • normalize_spectra()
    • plot_feature_map_rt_alignment()
    • plot_features_3D()
    • plot_id_df()
    • plot_mass_traces()
    • print_params()
    • quick_plot()
    • read_experiment()
    • read_feature_map_XML()
    • read_feature_maps_XML()
    • read_mnx()
    • separate_feature_maps_pos_neg()
    • smooth_spectra()
    • sns_plot()
    • store_experiment()
    • store_feature_maps()
    • sum_spectra()
    • targeted_feature_detection()
    • targeted_features_detection()
    • trim_threshold()
    • trim_threshold_batch()
    • untargeted_feature_detection()
    • untargeted_features_detection()
  • skripts.FIA.FIA_oms module
  • Module contents
• skripts.ML package
  • Submodules
  • skripts.ML.ML4com module
    • SKL_Classifier
      • SKL_Classifier.train()
    • dict_permutations()
    • evaluate_model_sklearn()
    • extract_best_hyperparameters_from_incumbent()
    • extract_metrics()
    • individual_layers_to_tuple()
    • intersect_impute_on_left()
    • join_df_metNames()
    • nested_cross_validate_model_sklearn()
    • plot_cv_confmat()
    • plot_decision_trees()
    • plot_metrics_df()
    • tune_classifier()
    • tune_train_model_sklearn()
  • skripts.ML.ML4com_run module
  • Module contents
• skripts.Presentation package
  • Submodules
  • skripts.Presentation.plot module
  • skripts.Presentation.significance_analysis module
  • Module contents
• skripts.VAE package
  • Submodules
  • skripts.VAE.VAE_interpret module
  • skripts.VAE.VAE_smac module
    • FIA_VAE_tune
      • FIA_VAE_tune.train()
    • ask_tell_optimization()
    • main()
    • run_optimization()
    • save_runtime()
    • time_step()
    • validate_incumbent()
  • skripts.VAE.smac_runhistories module
  • skripts.VAE.vae module
  • Module contents
• skripts.helpers package
  • Submodules
  • skripts.helpers.check_gpus module
  • skripts.helpers.combine_dfs module
    • combine_dc()
    • concat_dfs()
    • main()
    • read_df()
    • write_df()
  • skripts.helpers.file_handling module
    • convert_to_utf8()
    • mat_to_tsv()
    • mat_to_tsv_batch()
    • parse_folder()
    • remove_by_filename()
  • skripts.helpers.mailing module
  • skripts.helpers.normalization module
    • standard_normalization()
    • total_ion_count_normalization()
  • skripts.helpers.pc_stats module
    • bits_to_bytes()
    • print_available_gpus()
    • print_utilization()
  • Module contents

Module contents