pmotools.scripts package

Subpackages

• pmotools.scripts.convertors_to_pmo package
  • Submodules
    • pmotools.scripts.convertors_to_pmo.excel_meta_to_json_meta module
      • excel_meta_to_json_meta()
      • get_parser_excel_meta_to_json_meta()
      • parse_args_excel_meta_to_json_meta()
    • pmotools.scripts.convertors_to_pmo.microhaplotype_table_to_json_file module
      • get_parser_microhaplotype_table_to_json_file()
      • microhaplotype_table_to_json_file()
      • parse_args_microhaplotype_table_to_json_file()
    • pmotools.scripts.convertors_to_pmo.terra_amp_output_to_json module
      • get_parser_terra_amp_output_to_json()
      • parse_args_terra_amp_output_to_json()
      • terra_amp_output_to_json()
    • pmotools.scripts.convertors_to_pmo.text_meta_to_json_meta module
      • get_parser_text_meta_to_json_meta()
      • parse_args_text_meta_to_json_meta()
      • text_meta_to_json_meta()
  • Module contents
• pmotools.scripts.extract_info_from_pmo package
  • Submodules
    • pmotools.scripts.extract_info_from_pmo.count_library_samples_per_target module
      • count_library_samples_per_target()
      • get_parser_count_library_samples_per_target()
      • parse_args_count_library_samples_per_target()
    • pmotools.scripts.extract_info_from_pmo.count_specimen_meta module
      • count_specimen_meta()
      • get_parser_count_specimen_meta()
      • parse_args_count_specimen_meta()
    • pmotools.scripts.extract_info_from_pmo.count_targets_per_library_sample module
      • count_targets_per_library_sample()
      • get_parser_count_targets_per_library_sample()
      • parse_args_count_targets_per_library_sample()
    • pmotools.scripts.extract_info_from_pmo.list_bioinformatics_run_names module
      • get_parser_list_bioinformatics_run_names()
      • list_bioinformatics_run_names()
      • parse_args_list_bioinformatics_run_names()
    • pmotools.scripts.extract_info_from_pmo.list_library_sample_names_per_specimen_name module
      • get_parser_list_library_sample_names_per_specimen_name()
      • list_library_sample_names_per_specimen_name()
      • parse_args_list_library_sample_names_per_specimen_name()
    • pmotools.scripts.extract_info_from_pmo.list_specimen_meta_fields module
      • get_parser_list_specimen_meta_fields()
      • list_specimen_meta_fields()
      • parse_args_list_specimen_meta_fields()
  • Module contents
• pmotools.scripts.extractors_from_pmo package
  • Submodules
    • pmotools.scripts.extractors_from_pmo.extract_pmo_with_read_filter module
      • extract_pmo_with_read_filter()
      • get_parser_extract_pmo_with_read_filter()
      • parse_args_extract_pmo_with_read_filter()
    • pmotools.scripts.extractors_from_pmo.extract_pmo_with_select_library_sample_names module
      • extract_pmo_with_select_library_sample_names()
      • get_parser_extract_pmo_with_select_library_sample_names()
      • parse_args_extract_pmo_with_select_library_sample_names()
    • pmotools.scripts.extractors_from_pmo.extract_pmo_with_select_specimen_names module
      • extract_pmo_with_select_specimen_names()
      • get_parser_extract_pmo_with_select_specimen_names()
      • parse_args_extract_pmo_with_select_specimen_names()
    • pmotools.scripts.extractors_from_pmo.extract_pmo_with_select_targets module
      • extract_pmo_with_select_targets()
      • get_parser_extract_pmo_with_select_targets()
      • parse_args_extract_pmo_with_select_targets()
    • pmotools.scripts.extractors_from_pmo.extract_pmo_with_selected_meta module
      • extract_pmo_with_selected_meta()
      • get_parser_extract_pmo_with_selected_meta()
      • parse_args_extract_pmo_with_selected_meta()
  • Module contents
• pmotools.scripts.pmo_to_tables package
  • Submodules
    • pmotools.scripts.pmo_to_tables.export_bioinformatics_methods_info_meta_table module
      • export_bioinformatics_methods_info_meta_table()
      • get_parser_export_bioinformatics_methods_info_meta_table()
      • parse_args_export_bioinformatics_methods_info_meta_table()
    • pmotools.scripts.pmo_to_tables.export_bioinformatics_run_info_meta_table module
      • export_bioinformatics_run_info_meta_table()
      • get_parser_export_bioinformatics_run_info_meta_table()
      • parse_args_export_bioinformatics_run_info_meta_table()
    • pmotools.scripts.pmo_to_tables.export_library_sample_meta_table module
      • export_library_sample_meta_table()
      • get_parser_export_library_sample_meta_table()
      • parse_args_export_library_sample_meta_table()
    • pmotools.scripts.pmo_to_tables.export_panel_info_meta_table module
      • export_panel_info_meta_table()
      • get_parser_export_panel_info_meta_table()
      • parse_args_export_panel_info_meta_table()
    • pmotools.scripts.pmo_to_tables.export_pmo_into_xlsx module
      • export_pmo_into_xlsx()
      • get_parser_export_pmo_into_xlsx()
      • parse_args_export_pmo_into_xlsx()
    • pmotools.scripts.pmo_to_tables.export_project_info_meta_table module
      • export_project_info_meta_table()
      • get_parser_export_project_info_meta_table()
      • parse_args_export_project_info_meta_table()
    • pmotools.scripts.pmo_to_tables.export_sequencing_info_meta_table module
      • export_sequencing_info_meta_table()
      • get_parser_export_sequencing_info_meta_table()
      • parse_args_export_sequencing_info_meta_table()
    • pmotools.scripts.pmo_to_tables.export_specimen_meta_table module
      • export_specimen_meta_table()
      • get_parser_export_specimen_meta_table()
      • parse_args_export_specimen_meta_table()
    • pmotools.scripts.pmo_to_tables.export_specimen_travel_meta_table module
      • export_specimen_travel_meta_table()
      • get_parser_export_specimen_travel_meta_table()
      • parse_args_export_specimen_travel_meta_table()
    • pmotools.scripts.pmo_to_tables.export_target_info_meta_table module
      • export_target_info_meta_table()
      • get_parser_export_target_info_meta_table()
      • parse_args_export_target_info_meta_table()
    • pmotools.scripts.pmo_to_tables.export_targeted_genomes_meta_table module
      • export_targeted_genomes_meta_table()
      • get_parser_export_targeted_genomes_meta_table()
      • parse_args_export_targeted_genomes_meta_table()
    • pmotools.scripts.pmo_to_tables.extract_allele_table module
      • extract_for_allele_table()
      • get_parser()
      • parse_args_extract_for_allele_table()
    • pmotools.scripts.pmo_to_tables.extract_insert_of_panels module
      • extract_insert_of_panels()
      • get_parser_extract_insert_of_panels()
      • parse_args_extract_insert_of_panels()
    • pmotools.scripts.pmo_to_tables.extract_refseq_of_inserts_of_panels module
      • extract_refseq_of_inserts_of_panels()
      • get_parser_extract_refseq_of_inserts_of_panels()
      • parse_args_extract_refseq_of_inserts_of_panels()
  • Module contents
• pmotools.scripts.pmo_utils package
  • Submodules
    • pmotools.scripts.pmo_utils.combine_pmos module
      • combine_pmos()
      • get_parser_combine_pmos()
      • parse_args_combine_pmos()
    • pmotools.scripts.pmo_utils.validate_pmo module
      • get_parser_validate_pmo()
      • parse_args_validate_pmo()
      • validate_pmo()
  • Module contents

Module contents