Index

A

add_component_to_dsd() (in module FAIRLinked.QBWorkflow.rdf_transformer)

add_term_to_ontology() (in module FAIRLinked.InterfaceMDS.add_ontology_term)

C

check_if_running_experiment() (in module FAIRLinked.QBWorkflow.input_handler) check_ingestion() (in module FAIRLinked.QBWorkflow.input_handler) check_valid_id() (in module FAIRLinked.QBWorkflow.input_handler) choose_conversion_mode() (in module FAIRLinked.QBWorkflow.input_handler) classify_leaf_nodes() (in module FAIRLinked.QBWorkflow.mds_ontology_analyzer) compute_file_hash() (in module FAIRLinked.QBWorkflow.rdf_transformer) convert_dataset_to_rdf_with_mode() (in module FAIRLinked.QBWorkflow.rdf_transformer) convert_entire_dataset() (in module FAIRLinked.QBWorkflow.rdf_transformer)

convert_row_by_row() (in module FAIRLinked.QBWorkflow.rdf_transformer) convert_row_by_row_CRADLE() (in module FAIRLinked.QBWorkflow.rdf_transformer) convert_ttl_to_cemento() (in module FAIRLinked.InterfaceMDS.convert_ttl_to_drawio) create_dsd() (in module FAIRLinked.QBWorkflow.rdf_transformer) create_observation() (in module FAIRLinked.QBWorkflow.rdf_transformer) create_observation_2() (in module FAIRLinked.QBWorkflow.rdf_transformer) create_root_folder() (in module FAIRLinked.QBWorkflow.rdf_transformer) create_subfolders() (in module FAIRLinked.QBWorkflow.rdf_transformer)

D

domain_subdomain_directory() (in module FAIRLinked.InterfaceMDS.domain_subdomain_viewer)

domain_subdomain_viewer() (in module FAIRLinked.InterfaceMDS) (in module FAIRLinked.InterfaceMDS.domain_subdomain_viewer)

E

extract_data_from_csv() (in module FAIRLinked.RDFTableConversion.csv_to_jsonld_template_filler) extract_from_folder() (in module FAIRLinked.RDFTableConversion.csv_to_jsonld_template_filler)

extract_row_from_jsonld() (in module FAIRLinked.RDFTableConversion.jsonld_batch_converter) extract_subject_details() (in module FAIRLinked.InterfaceMDS.rdf_subject_extractor) extract_variables() (in module FAIRLinked.QBWorkflow.rdf_transformer)

F

FAIRLinked module FAIRLinked.InterfaceMDS module FAIRLinked.InterfaceMDS.add_ontology_term module FAIRLinked.InterfaceMDS.convert_ttl_to_drawio module FAIRLinked.InterfaceMDS.domain_subdomain_viewer module FAIRLinked.InterfaceMDS.load_mds_ontology module FAIRLinked.InterfaceMDS.rdf_subject_extractor module FAIRLinked.InterfaceMDS.term_search_general module FAIRLinked.QBWorkflow module FAIRLinked.QBWorkflow.data_parser module FAIRLinked.QBWorkflow.data_template_generator module

FAIRLinked.QBWorkflow.input_handler module FAIRLinked.QBWorkflow.mds_ontology_analyzer module FAIRLinked.QBWorkflow.namespace_parser module FAIRLinked.QBWorkflow.namespace_template_generator module FAIRLinked.QBWorkflow.rdf_data_cube_workflow module FAIRLinked.QBWorkflow.rdf_to_df module FAIRLinked.QBWorkflow.rdf_transformer module FAIRLinked.QBWorkflow.utility module FAIRLinked.RDFTableConversion.csv_to_jsonld_template_filler module FAIRLinked.RDFTableConversion.jsonld_batch_converter module find_leaf_nodes() (in module FAIRLinked.QBWorkflow.mds_ontology_analyzer) format_term() (in module FAIRLinked.InterfaceMDS.add_ontology_term) fuzzy_filter_subjects_strict() (in module FAIRLinked.InterfaceMDS.rdf_subject_extractor)

G

generate_data_xlsx_template() (in module FAIRLinked.QBWorkflow.data_template_generator) generate_namespace_excel() (in module FAIRLinked.QBWorkflow.namespace_template_generator) generate_prop_metadata_dict() (in module FAIRLinked.RDFTableConversion.csv_to_jsonld_template_filler) get_approved_id_columns() (in module FAIRLinked.QBWorkflow.input_handler) get_classification() (in module FAIRLinked.QBWorkflow.mds_ontology_analyzer) get_dataset_name() (in module FAIRLinked.QBWorkflow.input_handler) get_domain() (in module FAIRLinked.QBWorkflow.input_handler) get_identifiers() (in module FAIRLinked.QBWorkflow.input_handler) get_input_data_excel() (in module FAIRLinked.QBWorkflow.input_handler)

get_input_namespace_excel() (in module FAIRLinked.QBWorkflow.input_handler) get_namespace_for_dataset() (in module FAIRLinked.QBWorkflow.input_handler) get_ontology_file() (in module FAIRLinked.QBWorkflow.input_handler) get_orcid() (in module FAIRLinked.QBWorkflow.input_handler) get_output_folder_path() (in module FAIRLinked.QBWorkflow.input_handler) get_prefixed_name() (in module FAIRLinked.QBWorkflow.mds_ontology_analyzer) get_property_uri() (in module FAIRLinked.QBWorkflow.rdf_transformer) get_row_identifier_columns() (in module FAIRLinked.QBWorkflow.input_handler) get_term_details() (in module FAIRLinked.InterfaceMDS.add_ontology_term) get_top_level_terms_from_combined() (in module FAIRLinked.QBWorkflow.mds_ontology_analyzer)

H

has_all_ontology_files() (in module FAIRLinked.QBWorkflow.input_handler)

has_existing_datacube_file() (in module FAIRLinked.QBWorkflow.input_handler)

J

jsonld_directory_to_csv() (in module FAIRLinked.RDFTableConversion.jsonld_batch_converter)

L

load_mds_ontology_graph() (in module FAIRLinked.InterfaceMDS.load_mds_ontology)

M

main() (in module FAIRLinked.InterfaceMDS.rdf_subject_extractor) module FAIRLinked FAIRLinked.InterfaceMDS FAIRLinked.InterfaceMDS.add_ontology_term FAIRLinked.InterfaceMDS.convert_ttl_to_drawio FAIRLinked.InterfaceMDS.domain_subdomain_viewer FAIRLinked.InterfaceMDS.load_mds_ontology FAIRLinked.InterfaceMDS.rdf_subject_extractor FAIRLinked.InterfaceMDS.term_search_general FAIRLinked.QBWorkflow FAIRLinked.QBWorkflow.data_parser FAIRLinked.QBWorkflow.data_template_generator FAIRLinked.QBWorkflow.input_handler FAIRLinked.QBWorkflow.mds_ontology_analyzer FAIRLinked.QBWorkflow.namespace_parser FAIRLinked.QBWorkflow.namespace_template_generator FAIRLinked.QBWorkflow.rdf_data_cube_workflow FAIRLinked.QBWorkflow.rdf_to_df FAIRLinked.QBWorkflow.rdf_transformer FAIRLinked.QBWorkflow.utility FAIRLinked.RDFTableConversion.csv_to_jsonld_template_filler FAIRLinked.RDFTableConversion.jsonld_batch_converter

P

parse_excel_to_namespace_map() (in module FAIRLinked.QBWorkflow.namespace_parser) parse_existing_datacube_workflow() (in module FAIRLinked.QBWorkflow.rdf_data_cube_workflow)

parse_rdf_to_df() (in module FAIRLinked.QBWorkflow.rdf_to_df) prepare_namespaces() (in module FAIRLinked.QBWorkflow.rdf_transformer) process_unit() (in module FAIRLinked.QBWorkflow.rdf_transformer)

R

rdf_data_cube_workflow_start() (in module FAIRLinked.QBWorkflow.rdf_data_cube_workflow) read_excel_template() (in module FAIRLinked.QBWorkflow.data_parser)

run_experiment_workflow() (in module FAIRLinked.QBWorkflow.rdf_data_cube_workflow) run_ingestion_workflow() (in module FAIRLinked.QBWorkflow.rdf_data_cube_workflow) run_standard_workflow() (in module FAIRLinked.QBWorkflow.rdf_data_cube_workflow)

S

should_save_csv() (in module FAIRLinked.QBWorkflow.input_handler)

T

term_search_general() (in module FAIRLinked.InterfaceMDS) (in module FAIRLinked.InterfaceMDS.term_search_general)

U

update_category_colors() (in module FAIRLinked.QBWorkflow.mds_ontology_analyzer)

V

validate_orcid_format() (in module FAIRLinked.QBWorkflow.utility)

W

write_naming_conventions_doc() (in module FAIRLinked.QBWorkflow.rdf_transformer)