Index

_

__init__() (HedLabMetaData method) (HedNWBValidator method) (HedTags method) (HedValueVector method)

A

ACTION_ROLES (EventChecker attribute) add_columns() (in module hed.tools.util.data_util) add_context_and_filter() (ErrorHandler method) add_definitions() (DefinitionDict method) (DefValidator method) add_descriptions() (HedTypeCounts method) add_note() (HedFileError method) add_row() (HedTags method) (HedValueVector method) add_sub_check() (ComplianceSummary method) add_type() (HedTypeManager method) add_unit() (UnitClassEntry method) aggregate_code_counts() (ErrorHandler static method) all_children() (HedTags method) (HedValueVector method) all_entries (HedSchemaSection attribute) all_hed_columns (Sidecar property) all_names (HedSchemaSection attribute) all_objects (HedTags property) (HedValueVector property) ALL_ROLES (EventChecker attribute) ALL_TIME_KEYS (DefTagNames attribute) ALLOWED_ENCODINGS (HedTypeFactors attribute) AllowedCharacter (HedKey attribute) annotation quickstart recipe recipe for NWB what is HED

ANNOTATION_PROPERTY_EXTERNAL (SchemaComparer attribute), [1] AnnotationProperty (HedKey attribute) annotations assembly API legacy new append() (HedGroup method) (HedString method) (HedTags method) (HedValueVector method) AppFactory (class in hedweb.app_factory) args (HedFileError attribute) as_integer_ratio() (ErrorSeverity method) (TopTagReturnType method) assemble() (BaseInput method) (EventOperations method) (SpreadsheetInput method) (TabularInput method) (TimeseriesInput method) assembly curly braces attribute_has_property() (HedSchemaEntry method) (HedTagEntry method) (UnitClassEntry method) (UnitEntry method) attributes (HedSchema property) Attributes (HedSectionKey attribute) attributes (HedTag property)

B

background_color (WordCloudConfig attribute), [1], [2] BACKUP_DICTIONARY (BackupManager attribute) BACKUP_ROOT (BackupManager attribute) BackupManager (class in remodeler.backup_manager) BAD_COLUMN_NAMES (HedExceptions attribute) BAD_PARAMETERS (HedExceptions attribute) BASE_ARRAY (RemodelerValidator attribute) base_tag (HedTag property) base_tag_has_attribute() (HedTag method) (HedTagEntry method) BaseInput (class in hed.models.base_input) BaseOp (class in remodeler.operations.base_op) BaseOperations (class in hedweb.base_operations) BaseSummary (class in remodeler.operations.base_summary) best practices, [1], [2] BIDS annotation conversion to NWB dataset validation how HED works sidecar validation

BIDS dataset, [1], [2] BidsDataset (class in hed.tools.bids.bids_dataset) BidsDataset class BidsFile (class in hed.tools.bids.bids_file) BidsFileGroup (class in hed.tools.bids.bids_file_group) BidsSidecarFile (class in hed.tools.bids.bids_sidecar_file) BidsTabularFile (class in hed.tools.bids.bids_tabular_file) bit_count() (ErrorSeverity method) (TopTagReturnType method) bit_length() (ErrorSeverity method) (TopTagReturnType method) BLANK_HED_STRING (SidecarErrors attribute) BoolProperty (HedKeyOld attribute) BoolRange (HedKey attribute) BOTH (TopTagReturnType attribute), [1] bug reports

C

cache_local_versions() (in module hed.schema.hed_cache) cache_xml_versions() (in module hed.schema.hed_cache) CAMEL_CASE_EXPRESSION (TagValidator attribute) can_save() (HedSchema method) CANNOT_PARSE_JSON (HedExceptions attribute) CANNOT_PARSE_RDF (HedExceptions attribute) CANNOT_PARSE_XML (HedExceptions attribute) casefold() (HedGroup method) (HedString method) (HedTag method) Categorical (ColumnType attribute) CHARACTER_INVALID (ValidationErrors attribute) CharRexValidator (class in hed.validator.util.char_util) CharValidator (class in hed.validator.util.char_util) check_annotation_attribute_values() (SchemaValidator method) check_attributes() (SchemaValidator method) check_capitalization() (TagValidator method) check_compliance check_compliance() (HedSchema method) (HedSchemaBase method) (HedSchemaGroup method) (in module hed.schema.schema_validation.compliance) check_count_tag_group_parentheses() (StringValidator static method) check_delimiter_issues_in_hed_string() (StringValidator method) check_df_columns() (in module hed.tools.analysis.annotation_util) check_duplicate_hed_ids() (SchemaValidator method) check_duplicate_names() (SchemaValidator method) check_extras_columns() (SchemaValidator method) check_filename() (in module hed.tools.util.io_util) check_for_banned_tags() (OnsetValidator static method) check_for_blank_names() (ColumnMapper static method) check_for_definitions() (DefinitionDict method) (DefValidator method) check_for_duplicates() (DuplicateChecker method) check_for_invalid_extension_chars() (CharRexValidator method) (CharValidator method) check_for_mapping_issues() (ColumnMapper method) check_for_placeholder() (TagValidator static method) check_for_required_tags() (GroupValidator method) check_if_in_original() (HedGroup method) (HedString method) check_if_prerelease_version() (SchemaValidator method) check_invalid_character_issues() (CharRexValidator method) (CharValidator method) check_invalid_characters() (SchemaValidator method) check_match() (in module hed.tools.util.data_util) check_multiple_unique_tags_exist() (GroupValidator method) check_prologue_epilogue() (SchemaValidator method) check_quality() (EventOperations method) check_reserved_compatibility() (ReservedChecker method) check_tag_exists_in_schema() (TagValidator static method) check_tag_formatting() (HedValidator method) check_tag_invalid_chars() (CharRexValidator method) (CharValidator method) check_tag_is_deprecated() (TagValidator method) check_tag_level_issue() (GroupValidator static method) check_tag_requirements() (ReservedChecker method) check_tag_requires_child() (TagValidator static method) check_tag_unit_class_units_are_valid() (UnitValueValidator method) check_tag_value_class_valid() (UnitValueValidator method) children (HedTags property) (HedValueVector property) (UnitClassEntry property) clean_filename() (in module hed.tools.util.io_util) clear_contents() (BidsFile method) (BidsSidecarFile method) (BidsTabularFile method) CLI CLOSING_GROUP_CHARACTER (HedString attribute) (StringValidator attribute) color_func() (ColormapColorFunc method) color_range (WordCloudConfig attribute), [1], [2] color_step_range (WordCloudConfig attribute), [1], [2] colormap, [1] matplotlib plasma viridis colormap (WordCloudConfig attribute), [1], [2]

ColormapColorFunc (class in hedvis.generators.word_cloud_util) COLUMN (ErrorContext attribute) column_data (Sidecar property) column_metadata() (BaseInput method) (SpreadsheetInput method) (TabularInput method) (TimeseriesInput method) column_prefix_dictionary (ColumnMapper property) ColumnMapper (class in hed.models.column_mapper) ColumnMetadata (class in hed.models.column_metadata) ColumnNameSummary (class in hed.tools.analysis.column_name_summary) columns (BaseInput property) (KeyMap property) (SpreadsheetInput property) (TabularInput property) (TimeseriesInput property) columns_info_results() (in module hedweb.routes) ColumnType (class in hed.models.column_metadata) combine_dataframe() (BaseInput static method) (SpreadsheetInput static method) (TabularInput static method) (TimeseriesInput static method) COMMA (StringValidator attribute) COMMA_MISSING (ValidationErrors attribute) command-line interface common issues compare() (SchemaOperations method) compare_differences() (SchemaComparer method), [1] compare_schemas() (SchemaComparer method), [1] ComplianceSummary (class in hed.schema.schema_validation.compliance_summary) compress_strings() (EventManager static method) conditions HED annotations configuration API dictionary conjugate() (ErrorSeverity method) (TopTagReturnType method) container_source (HedTags property) (HedValueVector property) contents (BidsFile property) (BidsSidecarFile property) (BidsTabularFile property) contour_color (WordCloudConfig attribute), [1], [2] contour_width (WordCloudConfig attribute), [1], [2] contributing ConversionFactor (HedKey attribute) convert() (SchemaOperations method) (StringOperations method) convert_hed_versions() (in module hedweb.web_util) convert_to_form() (BaseInput method) (in module hed.models.df_util) (SpreadsheetInput method) (TabularInput method) (TimeseriesInput method) convert_to_long() (BaseInput method) (SpreadsheetInput method) (TabularInput method) (TimeseriesInput method) convert_to_short() (BaseInput method) (SpreadsheetInput method) (TabularInput method) (TimeseriesInput method) ConvertColumnsOp (class in remodeler.operations.convert_columns_op) copy() (HedGroup method) (HedString method) (HedTag method) create_app() (AppFactory static method) create_backup() (BackupManager method) create_column_selections() (in module hedweb.columns) create_file_dict() (FileDictionary method) create_file_group() (BidsFileGroup static method) create_template() (HedTagCounts static method) create_wordcloud create_wordcloud() (in module hedvis.generators.word_cloud), [1] CURLY_BRACE_UNSUPPORTED_HERE (ValidationErrors attribute) CUSTOM_TITLE (ErrorContext attribute) customization CUTOFF_TAGS (EventsSummary attribute)

D

data (HedTags property) (HedValueVector property) data preparation data_type (HedTags attribute) (HedValueVector attribute) datafile_dict (BidsFileGroup attribute) dataframe (BaseInput property) (SpreadsheetInput property) (TabularInput property) (TimeseriesInput property) dataframe_a (BaseInput property) (SpreadsheetInput property) (TabularInput property) (TimeseriesInput property) dataframe_from_worksheet() (in module hedweb.columns) dataset HED-annotated dataset_description.json DATE_TIME_VALUE_CLASS (UnitValueValidator attribute) debugging def_dict (Sidecar property) DEF_EXPAND_INVALID (ValidationErrors attribute) DEF_EXPAND_KEY (DefTagNames attribute) DEF_INVALID (ValidationErrors attribute) DEF_KEY (DefTagNames attribute) DEFAULT_ALLOWED_PLACEHOLDER_CHARS (CharRexValidator attribute) (CharValidator attribute) DEFAULT_BACKUP_NAME (BackupManager attribute) default_color_func() (in module hedvis.generators.word_cloud_util), [1] default_unit (HedTag property) DefaultUnits (HedKey attribute) DefExpandGatherer (class in hed.models.def_expand_gather) DEFINITION_INVALID (ValidationErrors attribute) DEFINITION_KEY (DefTagNames attribute) DefinitionDict (class in hed.models.definition_dict) DefinitionEntry (class in hed.models.definition_entry) definitions DefTagNames (class in hed.models.model_constants) DefValidator (class in hed.validator.def_validator) DELAY_KEY (DefTagNames attribute) delete_columns() (in module hed.tools.util.data_util) delete_rows_by_column() (in module hed.tools.util.data_util) denominator (ErrorSeverity attribute) (TopTagReturnType attribute) dependencies optional DeprecatedFrom (HedKey attribute) derivative_units (UnitClassEntry attribute) (UnitEntry attribute)

description (HedTags property) (HedValueVector property) design concepts design matrices HED developer guide schema development; library schemas; HED workflow development df_to_hed() (in module hed.tools.analysis.annotation_util) dictionary DIGIT_OR_POUND_EXPRESSION (UnitValueValidator attribute) Dispatcher (class in remodeler.dispatcher) DISPLAY_INDENT (BaseSummary attribute) do_op() (BaseOp method) (ConvertColumnsOp method) (FactorColumnOp method) (FactorHedTagsOp method) (FactorHedTypeOp method) (MergeConsecutiveOp method) (NumberGroupsOp method) (NumberRowsOp method) (RemapColumnsOp method) (RemoveColumnsOp method) (RemoveRowsOp method) (RenameColumnsOp method) (ReorderColumnsOp method) (SplitRowsOp method) (SummarizeColumnNamesOp method) (SummarizeColumnValuesOp method) (SummarizeDefinitionsOp method) (SummarizeHedTagsOp method) (SummarizeHedTypeOp method) (SummarizeHedValidationOp method) (SummarizeSidecarFromEventsOp method) documentation building dot_str() (SequenceMap method) dump_summary() (BaseSummary static method) DUPLICATE_COLUMN_BETWEEN_SOURCES (ValidationErrors attribute) DUPLICATE_COLUMN_IN_LIST (ValidationErrors attribute) duplicate_names (HedSchemaSection property) (HedSchemaTagSection property) (HedSchemaUnitClassSection property) (HedSchemaUnitSection property) DuplicateChecker (class in hed.validator.util.dup_util) DURATION_KEY (DefTagNames attribute) DURATION_KEYS (DefTagNames attribute)

E

edge_to_str() (SequenceMap method) ELEMENT_DEPRECATED (ValidationErrors attribute) ElementDomain (HedKey attribute) ElementProperty (HedKeyOld attribute) entity_dict (BidsFile attribute) ERROR (ErrorSeverity attribute) error handling ErrorContext (class in hed.errors.error_types) ErrorHandler (class in hed.errors.error_reporter) errors empty word cloud font not found import mask not applied types errors_to_str() (Dispatcher static method) ErrorSeverity (class in hed.errors.error_types) event event files EVENT_TAGS (EventChecker attribute) EventChecker (class in hed.tools.analysis.event_checker) EventManager (class in hed.tools.analysis.event_manager) EventOperations (class in hedweb.event_operations) events struct array tabular input events file events_results() (in module hedweb.routes) EventsChecker (class in hed.tools.analysis.event_checker)

EventsSummary (class in hed.tools.analysis.events_summary) examples, [1] EXCEL_EXTENSION (BaseInput attribute) (SpreadsheetInput attribute) (TabularInput attribute) (TimeseriesInput attribute) EXCLUDED_PARENTS (EventsSummary attribute) expand_defs() (BaseInput method) (HedString method) (in module hed.models.df_util) (SpreadsheetInput method) (TabularInput method) (TimeseriesInput method) expandable (HedTag property) expanded (HedTag property) expected_pound_sign_count() (ColumnMetadata static method) ext (BidsFile attribute) extend() (HedTags method) (HedValueVector method) extension (HedTag property) ExtensionAllowed (HedKey attribute) extract_def_names() (HedTypeDefs static method) extract_definitions() (in module ndx_hed.utils.bids2nwb) extract_meanings() (in module ndx_hed.utils.bids2nwb) extract_sidecar_template() (TabularSummary method) extract_suffix_path() (in module hed.tools.util.io_util) extract_summary() (TabularSummary static method) extract_tag_summary() (EventsSummary method) extract_tags() (in module hed.tools.analysis.annotation_util) EXTRAS_SECTION (SchemaComparer attribute), [1]

F

FactorColumnOp (class in remodeler.operations.factor_column_op) FactorHedTagsOp (class in remodeler.operations.factor_hed_tags_op) FactorHedTypeOp (class in remodeler.operations.factor_hed_type_op) fields (HedTags property) (HedValueVector property) file_dict (FileDictionary property) file_extension_is_valid() (in module hedweb.web_util) file_groups (BidsDataset attribute) file_list (FileDictionary property) FILE_NAME (ErrorContext attribute) FILE_NOT_FOUND (HedExceptions attribute) file_path (BidsFile attribute) FileDictionary (class in hed.tools.analysis.file_dictionary) filter_edges() (SequenceMap method) filter_issues() (in module hedweb.web_util) filter_issues_by_count() (ErrorHandler static method) filter_issues_by_severity() (ErrorHandler static method) filter_series_by_onset() (in module hed.models.df_util) FILTERED_TAGS (EventsSummary attribute) finalize_dictionaries() (HedSchema method) finalize_entry() (HedSchemaEntry method) (HedTagEntry method) (UnitClassEntry method) (UnitEntry method) find_def_tags() (HedGroup method) (HedString method) find_exact_tags() (HedGroup method) (HedString method) (StringNode method) find_matching_tags() (SchemaComparer method), [1] find_placeholder_tag() (HedGroup method) (HedString method) find_rooted_entry() (SchemaLoader static method) find_tag_entry() (HedSchema method) (HedSchemaBase method) (HedSchemaGroup method)

find_tags() (HedGroup method) (HedString method) find_tags_with_term() (HedGroup method) (HedString method) (StringNode method) find_top_level_tags() (HedString method) find_wildcard_tags() (HedGroup method) (HedString method) (StringNode method) fix_extra() (SchemaLoader method) fix_extras() (SchemaLoader method) flatten_schema() (in module hed.tools.util.schema_util) font custom font size font_path, [1] (WordCloudConfig attribute), [1], [2] form_has_file() (in module hedweb.web_util) form_has_option() (in module hedweb.web_util) form_has_url() (in module hedweb.web_util) format_error() (ErrorHandler static method) (SchemaOperations static method) format_error_from_context() (ErrorHandler static method) format_error_with_context() (ErrorHandler method) from_bytes() (ErrorSeverity class method) (TopTagReturnType class method) from_dataframes() (in module hed.schema.hed_schema_io) from_dict() (VisualizationConfig class method), [1] (WordCloudConfig class method), [1] from_hed_strings() (HedString static method) from_string() (in module hed.schema.hed_schema_io) funding

G

gather_schema_changes() (SchemaComparer method), [1] generate_contour_svg() (in module hedvis.generators.word_cloud_util), [1] generate_download_file_from_text() (in module hedweb.web_util) generate_download_spreadsheet() (in module hedweb.web_util) generate_download_zip_file() (in module hedweb.web_util) generate_filename() (in module hedweb.web_util) generate_new_id() (HedTags method) (HedValueVector method) generate_schema_lookup() (in module hed.models.schema_lookup) generate_sidecar() (EventOperations method) generate_sidecar_entry() (in module hed.tools.analysis.annotation_util) generate_text_response() (in module hedweb.web_util) GENERIC_ERROR (HedExceptions attribute) get() (DefinitionDict method) (DefValidator method) (HedSchemaSection method) (HedSchemaTagSection method) (HedSchemaUnitClassSection method) (HedSchemaUnitSection method) (HedTags method) (HedValueVector method) get_all_groups() (HedGroup method) (HedString method) (StringNode method) get_all_tags() (HedGroup method) (HedString method) (StringNode method) get_allowed() (in module hed.tools.util.io_util) get_alphanumeric_path() (in module hed.tools.util.io_util) get_ancestor() (HedTags method) (HedValueVector method) get_ancestors() (HedTags method) (HedValueVector method) get_as_dataframes() (HedSchema method) get_as_form() (HedGroup method) (HedString method) get_as_indented() (HedGroup method) (HedString method) get_as_json_string() (HedSchema method) (Sidecar method) get_as_long() (HedGroup method) (HedString method) get_as_mediawiki_string() (HedSchema method) get_as_original() (HedString method) get_as_short() (HedGroup method) (HedString method) get_as_strings() (DefinitionDict static method) (DefValidator static method) get_as_xml_string() (HedSchema method) get_backup() (BackupManager method) get_backup_files() (BackupManager method) get_backup_path() (BackupManager method) get_basename() (in module hed.tools.util.io_util) get_bids_events() (in module ndx_hed.utils.bids2nwb) get_cache_directory() (in module hed.schema.hed_cache) get_candidates() (in module hed.tools.bids.bids_util) get_categorical_meanings() (in module ndx_hed.utils.bids2nwb) get_code_counts() (ErrorHandler static method) get_column_mapping_issues() (ColumnMapper method) get_column_numbers() (in module hedweb.columns) get_column_refs() (BaseInput method) (Sidecar method) (SpreadsheetInput method) (TabularInput method) (TimeseriesInput method) get_columns_info() (TabularSummary static method) get_columns_request() (in module hedweb.columns) get_conversion_factor() (UnitEntry method) get_data_file() (Dispatcher method) get_def_dict get_def_dict() (BaseInput method) (ColumnMapper method) (Sidecar method) (SpreadsheetInput method) (TabularInput method) (TimeseriesInput method) get_def_information() (ReservedChecker method) get_definition() (DefinitionEntry method) get_definition_entry() (DefinitionDict method) (DefValidator method) get_derivative_unit_entry() (UnitClassEntry method) get_details_dict() (BaseSummary method) get_edge_list() (SequenceMap method) get_eligible_values() (in module hed.tools.util.data_util) get_empty() (HedTagCount method) get_entity() (BidsFile method) (BidsSidecarFile method) (BidsTabularFile method) get_entries_with_attribute() (HedSchemaSection method) (HedSchemaTagSection method) (HedSchemaUnitClassSection method) (HedSchemaUnitSection method) get_error_lines() (EventsChecker static method) get_events_table() (in module ndx_hed.utils.bids2nwb) get_exception_message() (in module hedweb.web_util) get_extras() (HedSchema method) get_factor_vectors() (HedTypeManager method) get_factors() (HedTypeFactors method) get_fields_conf() (HedTags class method) (HedValueVector class method) get_file_group() (BidsDataset method) get_file_key() (BackupManager method) get_file_list() (in module hed.tools.util.io_util) get_file_path() (FileDictionary method) get_filtered_by_element() (in module hed.tools.util.io_util) get_filtered_list() (in module hed.tools.util.io_util) get_first_group() (HedGroup method) (HedString method) get_formatted_version() (HedSchema method) (HedSchemaBase method) (HedSchemaGroup method) get_full_extension() (in module hed.tools.util.io_util) get_group_requirements() (ReservedChecker method) get_hash() (DuplicateChecker method) get_hed_obj() (HedTagManager method) get_hed_objs() (EventOperations method) (HedTagManager method)

get_hed_schema_from_pull_down() (in module hedweb.web_util) get_hed_source() (EventsChecker static method) get_hed_strings() (ColumnMetadata method) get_hed_version_path() (in module hed.schema.hed_cache) get_hed_versions() (in module hed.schema.hed_cache) get_hed_xml_version() (in module hed.schema.hed_schema_io) get_incompatible() (ReservedChecker method) get_individual() (BaseSummary method) get_info() (HedTagCount method) get_input_from_form() (ProcessForm static method) get_input_schema() (ProcessServices static method) get_instance() (ReservedChecker static method) get_issue_details() (EventsChecker static method) get_key() (BidsFile method) (BidsSidecarFile method) (BidsTabularFile method) get_key_hash() (in module hed.tools.util.data_util) get_library_data() (in module hed.schema.hed_cache) get_list() (ProcessServices static method) get_merged_sidecar() (in module hed.tools.bids.bids_util) get_new_dataframe() (in module hed.tools.util.data_util) get_normalized_str() (HedTag method) get_number_unique() (TabularSummary method) get_onset_lines() (EventsChecker method) get_option() (in module hedweb.web_util) get_original_hed_string() (HedGroup method) (HedString method) get_parameter_string() (ProcessServices static method) get_parsed_name() (in module hedweb.web_util) get_parser() (in module remodeler.cli.run_remodel) (in module remodeler.cli.run_remodel_backup) (in module remodeler.cli.run_remodel_restore) get_path_components() (in module hed.tools.util.io_util) get_printable_issue_string() (in module hed.errors.error_reporter) get_problem_chars() (CharRexValidator method) get_process() (ProcessServices static method) get_query_handlers() (in module hed.models.query_service) get_read_io() (HedTags method) (HedValueVector method) get_reserved() (ReservedChecker method) get_row_hash() (in module hed.tools.util.data_util) get_save_header_attributes() (HedSchema method) get_schema() (Dispatcher static method) (in module hedweb.schema_operations) (ProcessForm static method) get_schema_from_description() (in module hed.tools.bids.bids_util) get_schema_versions() (HedSchema method) (HedSchemaBase method) (HedSchemaGroup method) (in module hedweb.web_util) get_service_info() (ProcessServices static method) get_services_list() (ProcessServices static method) get_sidecar() (in module remodeler.cli.run_remodel) (TabularInput method) get_static_url_path() (AppFactory static method) get_stripped_unit_value() (HedTag method) get_summaries() (Dispatcher method) get_summary() (BaseSummary method) (BidsDataset method) (ColumnNameSummary method) (ComplianceSummary method) (HedTagCount method) (HedTagCounts method) (HedType method) (HedTypeCount method) (HedTypeCounts method) (HedTypeFactors method) (TabularSummary method) get_summary_details() (BaseSummary method) get_summary_save_dir() (Dispatcher method) get_tag_attribute_names_old() (HedSchema method) get_tag_columns() (ColumnMapper method) (in module hedweb.columns) get_tag_entry() (HedSchema method) (HedSchemaBase method) (HedSchemaGroup method) get_tag_unit_class_units() (HedTag method) get_tags_with_attribute() (HedSchema method) (HedSchemaBase method) (HedSchemaGroup method) get_task() (BackupManager static method) get_task_dict() (in module hed.tools.util.io_util) get_task_from_file() (in module hed.tools.util.io_util) get_task_names() (BidsFileGroup method) get_text_summary() (BaseSummary method) get_text_summary_details() (BaseSummary method) get_timestamp() (in module hed.tools.util.io_util) get_transformers() (ColumnMapper method) get_type() (HedTypeManager method) get_type_def_names() (HedType method) (HedTypeManager method) get_type_defs() (EventManager method) get_type_factors() (HedType method) get_type_list() (HedType static method) get_type_tag_factor() (HedTypeManager method) get_type_value_factors() (HedType method) get_type_value_level_info() (HedType method) get_type_value_names() (HedType method) get_type_values() (HedTypeDefs method) get_unique_suffixes() (in module hed.tools.util.io_util) get_value_dict() (in module hed.tools.util.data_util) get_worksheet() (BaseInput method) (SpreadsheetInput method) (TabularInput method) (TimeseriesInput method) getHedAnnotations usage getHedTools getting started, [1] group_by_suffix() (in module hed.tools.bids.bids_util) GROUPS (TopTagReturnType attribute), [1] groups() (HedGroup method) (HedString method) (StringNode method) GroupValidator (class in hed.validator.util.group_util)

H

handle_backup() (in module remodeler.cli.run_remodel) handle_error() (in module hedweb.web_util) handle_http_error() (in module hedweb.web_util) has_attribute() (HedSchemaEntry method) (HedTag method) (HedTagEntry method) (UnitClassEntry method) (UnitEntry method) has_column_names (BaseInput property) (SpreadsheetInput property) (TabularInput property) (TimeseriesInput property) has_duplicates() (HedSchema method) has_same_children() (SearchResult method) has_same_tags() (SearchResult method) HED JavaScript TypeScript MATLAB HEDTools MCP TypeScript resources validation, [1] hed (HedValueVector property) HED (Hierarchical Event Descriptors) HED IDs hed-python hed-schemas hed-validator hed.schema.hed_cache module hed.schema.hed_schema_io module hed.schema.schema_comparer module hed.tools.analysis.annotation_util module hed.tools.bids.bids_util module hed.tools.util.data_util module hed.tools.util.io_util module hed.tools.util.schema_util module HED_BLANK_COLUMN (ValidationErrors attribute) HED_COLUMN_MISSING (ValidationErrors attribute) HED_COLUMN_NAME (TabularInput attribute) (TimeseriesInput attribute) HED_DEF_EXPAND_INVALID (ValidationErrors attribute) HED_DEF_EXPAND_UNMATCHED (ValidationErrors attribute) HED_DEF_EXPAND_VALUE_EXTRA (ValidationErrors attribute) HED_DEF_EXPAND_VALUE_MISSING (ValidationErrors attribute) HED_DEF_UNMATCHED (ValidationErrors attribute) HED_DEF_VALUE_EXTRA (ValidationErrors attribute) HED_DEF_VALUE_MISSING (ValidationErrors attribute) hed_dict (ColumnMetadata property) HED_GROUP_EMPTY (ValidationErrors attribute) HED_ID_SECTION (SchemaComparer attribute), [1] HED_LIBRARY_UNMATCHED (ValidationErrors attribute) HED_MISSING_REQUIRED_COLUMN (ValidationErrors attribute) HED_MULTIPLE_TOP_TAGS (ValidationErrors attribute) HED_PLACEHOLDER_OUT_OF_CONTEXT (ValidationErrors attribute) HED_RESERVED_TAG_GROUP_ERROR (ValidationErrors attribute) HED_RESERVED_TAG_REPEATED (ValidationErrors attribute) HED_SCHEMA_NODE_NAME_INVALID (HedExceptions attribute) HED_STRING (ErrorContext attribute) HED_TAG_GROUP_TAG (ValidationErrors attribute) HED_TAG_REPEATED (ValidationErrors attribute) HED_TAG_REPEATED_GROUP (ValidationErrors attribute) HED_TAGS_NOT_ALLOWED (ValidationErrors attribute) hed_to_df() (in module hed.tools.analysis.annotation_util) HED_TOP_LEVEL_TAG (ValidationErrors attribute) HED_UNKNOWN_COLUMN (ValidationErrors attribute) HedExceptions (class in hed.errors.exceptions) HedFileError (class in hed.errors.exceptions) HedGroup (class in hed.models.hed_group) HedID (HedKey attribute) HedIDValidator (class in hed.schema.schema_validation.hed_id_validator) HedKey (class in hed.schema.hed_schema_constants) HedKeyOld (class in hed.schema.hed_schema_constants)

HedLabMetaData (class in ndx_hed) HedNWBValidator (class in ndx_hed.utils.hed_nwb_validator) hedpy hedpy schema HedSchema (class in hed.schema.hed_schema) HedSchemaBase (class in hed.schema.hed_schema_base) HedSchemaEntry (class in hed.schema.hed_schema_entry) HedSchemaGroup (class in hed.schema.hed_schema_group) HedSchemaSection (class in hed.schema.hed_schema_section) HedSchemaTagSection (class in hed.schema.hed_schema_section) HedSchemaUnitClassSection (class in hed.schema.hed_schema_section) HedSchemaUnitSection (class in hed.schema.hed_schema_section) HedSectionKey (class in hed.schema.hed_schema_constants) HedString (class in hed.models.hed_string) HedString class HedTag (class in hed.models.hed_tag) HedTagCount (class in hed.tools.analysis.hed_tag_counts) HedTagCounts (class in hed.tools.analysis.hed_tag_counts) HedTagEntry (class in hed.schema.hed_schema_entry) HedTagManager (class in hed.tools.analysis.hed_tag_manager) HedTags basic usage standalone usage HedTags (class in ndx_hed) HEDTags (ColumnType attribute) HedTagVisualizer, [1], [2] (class in hedvis.core.tag_visualizer), [1] HedTools object hedtools, [1], [2], [3] HedType (class in hed.tools.analysis.hed_type) HedTypeCount (class in hed.tools.analysis.hed_type_counts) HedTypeCounts (class in hed.tools.analysis.hed_type_counts) HedTypeDefs (class in hed.tools.analysis.hed_type_defs) HedTypeFactors (class in hed.tools.analysis.hed_type_factors) HedTypeManager (class in hed.tools.analysis.hed_type_manager) HedValidator (class in hed.validator.hed_validator) HedValueVector usage HedValueVector (class in ndx_hed) hedvis hedvis.core.sequence_map module hedvis.core.tag_visualizer module hedvis.core.visualization_config module hedvis.generators.word_cloud module hedvis.generators.word_cloud_util module hedweb.app_factory module hedweb.base_operations module hedweb.columns module hedweb.event_operations module hedweb.process_form module hedweb.process_service module hedweb.routes module hedweb.schema_operations module hedweb.sidecar_operations module hedweb.spreadsheet_operations module hedweb.string_operations module hedweb.web_util module height (WordCloudConfig attribute), [1], [2] help Hierarchical Event Descriptors

I

Ignore (ColumnType attribute) imag (ErrorSeverity attribute) (TopTagReturnType attribute) imports basic INDIVIDUAL_SUMMARIES_PATH (BaseSummary attribute) InLibrary (HedKey attribute) insert_issue_details() (EventsChecker method) INSET_KEY (DefTagNames attribute) installation, [1], [2], [3] Python, [1] web services INVALID_DATAFRAME (HedExceptions attribute) INVALID_EXTENSION (HedExceptions attribute) INVALID_FILE_FORMAT (HedExceptions attribute) INVALID_HED_FORMAT (HedExceptions attribute) INVALID_PARENT_NODE (ValidationErrors attribute) INVALID_POUND_SIGNS_CATEGORY (SidecarErrors attribute) INVALID_POUND_SIGNS_VALUE (SidecarErrors attribute) INVALID_STRING_CHARS (CharRexValidator attribute) (CharValidator attribute) INVALID_STRING_CHARS_PLACEHOLDERS (CharRexValidator attribute) (CharValidator attribute) INVALID_TAG_CHARACTER (ValidationErrors attribute) INVALID_VALUE_CLASS_CHARACTER (ValidationErrors attribute)

INVALID_VALUE_CLASS_VALUE (ValidationErrors attribute) is_basic_tag() (HedTag method) is_column_ref() (HedTag method) is_group (HedGroup property) (HedString property) is_hed() (BidsSidecarFile static method) is_integer() (ErrorSeverity method) (TopTagReturnType method) is_placeholder() (HedTag method) is_sidecar_for() (BidsSidecarFile method) is_takes_value_tag() (HedTag method) is_unit_class_tag() (HedTag method) is_valid_value() (CharRexValidator method) is_value_class_tag() (HedTag method) IsInheritedProperty (HedKeyOld attribute) issues (DefinitionDict property) (DefValidator property) items() (DefinitionDict method) (DefValidator method) (HedSchemaSection method) (HedSchemaTagSection method) (HedSchemaUnitClassSection method) (HedSchemaUnitSection method) iter_errors() (in module hed.errors.error_reporter) iter_files() (FileDictionary method)

J

JavaScript TypeScript, HED validation JavaScript library

JSON sidecar template creation JSON sidecar Jupyter notebooks

K

key_cols (KeyMap attribute) key_diffs() (FileDictionary method) key_list (FileDictionary property) KeyMap (class in hed.tools.analysis.key_map)

keys() (HedSchemaSection method) (HedSchemaTagSection method) (HedSchemaUnitClassSection method) (HedSchemaUnitSection method)

L

lang library library (HedSchema property) library schema LINE (ErrorContext attribute) load() (SchemaLoader class method) load_and_resize_mask() (in module hedvis.generators.word_cloud), [1] load_schema load_schema() (in module hed.schema.hed_schema_io) load_schema_lookup() (in module hed.models.schema_lookup) load_schema_version load_schema_version() (in module hed.schema.hed_schema_io)

load_sidecar_file() (Sidecar method) load_sidecar_files() (Sidecar method) loaded_workbook (BaseInput property) (SpreadsheetInput property) (TabularInput property) (TimeseriesInput property) long_tag (HedTag property) long_tag_name (HedTagEntry attribute) lower() (HedGroup method) (HedString method) (HedTag method)

M

main() (in module remodeler.cli.run_remodel) (in module remodeler.cli.run_remodel_backup) (in module remodeler.cli.run_remodel_restore) make_backup() (BackupManager method) make_combined_dicts() (TabularSummary static method) make_file_dict() (FileDictionary static method) make_info_dataframe() (in module hed.tools.util.data_util) make_key() (FileDictionary static method) make_template() (KeyMap method) Mask image mask image, [1], [2] mask_path (WordCloudConfig attribute), [1], [2] match_tags() (EventsSummary static method) MATCH_TYPES (EventsSummary attribute) matches_criteria() (in module hed.tools.bids.bids_util) MATLAB interface MATLAB HEDTools MAX_CATEGORICAL (SummarizeColumnValuesOp attribute) max_font_size (WordCloudConfig attribute), [1], [2] MCP TypeScript, HED validation MCP server merge_all_info() (BaseSummary method) merge_and_result() (SearchResult method) merge_hed_dict() (in module hed.tools.analysis.annotation_util) merge_sidecar_list() (BidsSidecarFile static method) merge_tag_dicts() (HedTagCounts method) MergeConsecutiveOp (class in remodeler.operations.merge_consecutive_op) merged (HedSchema property) MESSAGE_STRINGS (RemodelerValidator attribute) migration dependencies

min_font_size (WordCloudConfig attribute), [1], [2] MISC_SECTION (SchemaComparer attribute), [1] Model Context Protocol modified (HedTags property) (HedValueVector property) module hed.schema.hed_cache hed.schema.hed_schema_io hed.schema.schema_comparer hed.tools.analysis.annotation_util hed.tools.bids.bids_util hed.tools.util.data_util hed.tools.util.io_util hed.tools.util.schema_util hedvis.core.sequence_map hedvis.core.tag_visualizer hedvis.core.visualization_config hedvis.generators.word_cloud hedvis.generators.word_cloud_util hedweb.app_factory hedweb.base_operations hedweb.columns hedweb.event_operations hedweb.process_form hedweb.process_service hedweb.routes hedweb.schema_operations hedweb.sidecar_operations hedweb.spreadsheet_operations hedweb.string_operations hedweb.web_util ndx_hed.utils.bids2nwb remodeler.cli.run_remodel remodeler.cli.run_remodel_backup remodeler.cli.run_remodel_restore

N

name (BaseInput property) NAME (BaseOp property) (ConvertColumnsOp attribute) (FactorColumnOp attribute) (FactorHedTagsOp attribute) (FactorHedTypeOp attribute) name (FileDictionary property) (HedSchema property) (HedSchemaBase property) (HedSchemaGroup property) (HedTags property) (HedValueVector property) (KeyMap attribute) NAME (MergeConsecutiveOp attribute) (NumberGroupsOp attribute) (NumberRowsOp attribute) (RemapColumnsOp attribute) (RemoveColumnsOp attribute) (RemoveRowsOp attribute) (RenameColumnsOp attribute) (ReorderColumnsOp attribute) name (SequenceMap attribute) NAME (SplitRowsOp attribute) name (SpreadsheetInput property) NAME (SummarizeColumnNamesOp attribute) (SummarizeColumnValuesOp attribute) (SummarizeDefinitionsOp attribute) (SummarizeHedTagsOp attribute) (SummarizeHedTypeOp attribute) (SummarizeHedValidationOp attribute) (SummarizeSidecarFromEventsOp attribute) name (TabularInput property) (TimeseriesInput property)

NAME_VALUE_CLASS (UnitValueValidator attribute) namespace (HedTags attribute) (HedValueVector attribute) ndx-events integration ndx-hed installation ndx_hed.utils.bids2nwb module needs_sorting (BaseInput property) (SpreadsheetInput property) (TabularInput property) (TimeseriesInput property) neurodata_type (HedTags attribute) (HedValueVector attribute) next steps NWB annotation NO_VALID_TAG_FOUND (ValidationErrors attribute) NODE_NAME_EMPTY (ValidationErrors attribute) NodeProperty (HedKeyOld attribute) NON_TASK_EVENTS (EventChecker attribute) normalize_boolean() (in module hedweb.process_service) NumberGroupsOp (class in remodeler.operations.number_groups_op) NumberRowsOp (class in remodeler.operations.number_rows_op) numerator (ErrorSeverity attribute) (TopTagReturnType attribute) NUMERIC_VALUE_CLASS (UnitValueValidator attribute) NumericRange (HedKey attribute) NWB annotation how HED works saving files what is NWB

O

object_id (HedTags property) (HedValueVector property) OFFSET_KEY (DefTagNames attribute) ONSET_KEY (DefTagNames attribute) ONSET_TOLERANCE (SpreadsheetValidator attribute) onsets (BaseInput property) (SpreadsheetInput property) (TabularInput property) (TimeseriesInput property) ONSETS_UNORDERED (ValidationErrors attribute)

OnsetValidator (class in hed.validator.onset_validator) OPENING_GROUP_CHARACTER (HedString attribute) (StringValidator attribute) OPERATION_DICT (RemodelerValidator attribute) optimization org_base_tag (HedTag property) org_tag (HedTag property) organize_tags() (HedTagCounts method) output_files() (FileDictionary method) output_formats (VisualizationConfig attribute), [1], [2]

P

package_results() (in module hedweb.web_util) package_spreadsheet() (ProcessServices static method) pandas DataFrame, [1], [2] PARAMETER_SPECIFICATION_TEMPLATE (RemodelerValidator attribute) PARAMS (BaseOp property) (ConvertColumnsOp attribute) (FactorColumnOp attribute) (FactorHedTagsOp attribute) (FactorHedTypeOp attribute) (MergeConsecutiveOp attribute) (NumberGroupsOp attribute) (NumberRowsOp attribute) (RemapColumnsOp attribute) (RemoveColumnsOp attribute) (RemoveRowsOp attribute) (RenameColumnsOp attribute) (ReorderColumnsOp attribute) (SplitRowsOp attribute) (SummarizeColumnNamesOp attribute) (SummarizeColumnValuesOp attribute) (SummarizeDefinitionsOp attribute) (SummarizeHedTagsOp attribute) (SummarizeHedTypeOp attribute) (SummarizeHedValidationOp attribute) (SummarizeSidecarFromEventsOp attribute) parent (HedTagEntry property) (HedTags property) (HedValueVector property) parent_name (HedTagEntry property) PARENTHESES_MISMATCH (ValidationErrors attribute) parse_arguments() (in module remodeler.cli.run_remodel) parse_bids_filename() (in module hed.tools.bids.bids_util) parse_hed_string() (in module hed.models.string_search) parse_operations() (Dispatcher static method) parse_tasks() (in module remodeler.cli.run_remodel) parse_version_list() (in module hed.schema.hed_schema_io) pattern_doubleslash (HedValidator attribute)

patterns visualization performance pip pip extras PLACEHOLDER_INVALID (ValidationErrors attribute) PNG format, [1] pop_error_context() (ErrorHandler method) post_proc_data() (Dispatcher static method) prefer_horizontal (WordCloudConfig attribute), [1], [2] PREFIXES (SchemaComparer attribute), [1] prep() (SequenceMap static method) prep_data() (Dispatcher static method) pretty_print_change_dict() (SchemaComparer method), [1] process() (BaseOperations method) (EventOperations method) (ProcessServices static method) (SchemaOperations method) (SidecarOperations method) (SpreadsheetOperations method) (StringOperations method) process_def_expands() (DefExpandGatherer method) (in module hed.models.df_util) process_schema() (Schema2DF method) (Schema2Wiki method) (Schema2XML method) ProcessForm (class in hedweb.process_form) ProcessServices (class in hedweb.process_service) properties (HedSchema property) Properties (HedSectionKey attribute) push_error_context() (ErrorHandler method) pyenv PyPI pyproject.toml Python direct calls installation

Q

queries

QueryHandler (class in hed.models.query_handler) quick start

R

random_color_darker() (in module hedvis.generators.word_cloud_util) read_io (HedTags property) (HedValueVector property) real (ErrorSeverity attribute) (TopTagReturnType attribute) Recommended (HedKey attribute) record_issues() (ComplianceSummary method) record_section() (ComplianceSummary method) related projects RelatedTag (HedKey attribute) RELATIVE_BACKUP_LOCATION (BackupManager attribute) relative_scaling (WordCloudConfig attribute), [1], [2] remap() (KeyMap method) RemapColumnsOp (class in remodeler.operations.remap_columns_op) remodel() (EventOperations method) remodeler.cli.run_remodel module remodeler.cli.run_remodel_backup module remodeler.cli.run_remodel_restore module RemodelerValidator (class in remodeler.remodeler_validator) REMODELING_SUMMARY_PATH (Dispatcher attribute) remove() (HedGroup method) (HedString method) remove_definitions() (HedString method) remove_quotes() (KeyMap static method) remove_refs() (HedString method) REMOVE_TYPES (EventsChecker attribute) (EventsSummary attribute) RemoveColumnsOp (class in remodeler.operations.remove_columns_op) RemoveRowsOp (class in remodeler.operations.remove_rows_op) RenameColumnsOp (class in remodeler.operations.rename_columns_op) render_events_form() (in module hedweb.routes) render_home_page() (in module hedweb.routes) render_schemas_form() (in module hedweb.routes) render_services_form() (in module hedweb.routes) render_sidecars_form() (in module hedweb.routes) render_spreadsheets_form() (in module hedweb.routes) render_strings_form() (in module hedweb.routes) reorder_columns() (in module hed.tools.util.data_util)

ReorderColumnsOp (class in remodeler.operations.reorder_columns_op) replace() (HedGroup static method) (HedString static method) replace_na() (in module hed.tools.util.data_util) replace_placeholder() (HedTag method) replace_tag_references() (ErrorHandler static method) replace_values() (in module hed.tools.util.data_util) report_value_char_errors() (UnitValueValidator static method) report_value_errors() (UnitValueValidator static method) RequireChild (HedKey attribute) Required (HedKey attribute) REQUIRED_TAG_MISSING (ValidationErrors attribute) requirements files deprecated Reserved (HedKey attribute) reserved_category_values (SidecarValidator attribute) reserved_column_names (SidecarValidator attribute) reserved_reqs_path (ReservedChecker attribute) ReservedChecker (class in hed.validator.reserved_checker) reset_column_mapper() (TabularInput method) reset_error_context() (ErrorHandler method) reset_mapper() (BaseInput method) (SpreadsheetInput method) (TabularInput method) (TimeseriesInput method) reset_parent() (HedTags method) (HedValueVector method) resort() (KeyMap method) resources NWB and HED restore_backup() (BackupManager method) root_path (BidsDataset attribute) Rooted (HedKey attribute) ROW (ErrorContext attribute) run_all_tags_validators() (GroupValidator method) run_basic_checks() (HedValidator method) run_full_string_checks() (HedValidator method) run_individual_tag_validators() (TagValidator method) run_operations() (Dispatcher method) run_ops() (in module remodeler.cli.run_remodel) run_string_validator() (StringValidator method) run_tag_level_validators() (GroupValidator method)

S

save() (BaseSummary method) save_as_dataframes() (HedSchema method) save_as_json() (HedSchema method) (Sidecar method) save_as_mediawiki() (HedSchema method) save_as_xml() (HedSchema method) save_directory (VisualizationConfig attribute), [1], [2] save_schema_lookup() (in module hed.models.schema_lookup) save_summaries() (Dispatcher method) save_visualizations() (BaseSummary method) scale_adjustment (WordCloudConfig attribute), [1], [2] schema conversion development IDs library loading release validation, [1] schema (BidsDataset attribute) (SchemaLoader property) schema management schema reference standard schema; library schemas; versions; formats; HED usage schema validation Schema2DF (class in hed.schema.schema_io.schema2df) Schema2Wiki (class in hed.schema.schema_io.schema2wiki) Schema2XML (class in hed.schema.schema_io.schema2xml) schema_83_props (HedSchema property) (HedSchemaBase property) (HedSchemaGroup property) SCHEMA_ATTRIBUTE (ErrorContext attribute) SCHEMA_DUPLICATE_FROM_LIBRARY (SchemaErrors attribute) SCHEMA_DUPLICATE_LIBRARY (HedExceptions attribute) SCHEMA_DUPLICATE_NAMES (HedExceptions attribute) SCHEMA_DUPLICATE_NODE (SchemaErrors attribute) schema_for_namespace() (HedSchema method) (HedSchemaBase method) (HedSchemaGroup method) SCHEMA_HEADER_INVALID (HedExceptions attribute) SCHEMA_INVALID (HedExceptions attribute) SCHEMA_INVALID_CHILD (SchemaErrors attribute) SCHEMA_INVALID_SIBLING (SchemaErrors attribute) SCHEMA_LIBRARY_INVALID (HedExceptions attribute) SCHEMA_LOAD_FAILED (HedExceptions attribute) schema_namespace (HedSchema property) (HedTag property) SCHEMA_SECTION (ErrorContext attribute) SCHEMA_SECTION_MISSING (HedExceptions attribute) SCHEMA_TAG (ErrorContext attribute) SCHEMA_TAG_TSV_BAD_PARENT (HedExceptions attribute) SCHEMA_VERSION_INVALID (HedExceptions attribute) schema_version_results() (in module hedweb.routes) schema_versions_results() (in module hedweb.routes) SchemaComparer (class in hed.schema.schema_comparer), [1] SchemaErrors (class in hed.errors.error_types) SchemaLoader (class in hed.schema.schema_io.base2schema) SchemaOperations (class in hedweb.schema_operations) schemas_results() (in module hedweb.routes) SchemaValidator (class in hed.schema.schema_validation.compliance) score library scripts search applications HED object-based text-based search() (EventOperations method) (QueryHandler method) (StringOperations method) (StringQueryHandler method) search_hed_objs() (in module hed.models.query_service) searchHed usage searching HED annotations SearchResult (class in hed.models.query_util) SECTION_ENTRY_NAMES (SchemaComparer attribute), [1] SECTION_ENTRY_NAMES_PLURAL (SchemaComparer attribute), [1] section_key (HedSchemaEntry property) (HedSchemaSection property) (HedSchemaTagSection property) (HedSchemaUnitClassSection property) (HedSchemaUnitSection property) (HedTagEntry property) (UnitClassEntry property) (UnitEntry property) semantics annotation separate_by_ext() (in module hed.tools.util.io_util) separate_issues() (in module hed.errors.error_reporter) separate_values() (in module hed.tools.util.data_util) SequenceMap (class in hedvis.core.sequence_map) series_a (BaseInput property) (SpreadsheetInput property) (TabularInput property) (TimeseriesInput property) series_filtered (BaseInput property) (SpreadsheetInput property) (TabularInput property) (TimeseriesInput property) series_to_factor() (in module hed.tools.analysis.annotation_util) services_results() (in module hedweb.routes) set_cache_directory() (in module hed.schema.hed_cache) set_cell() (BaseInput method) (SpreadsheetInput method) (TabularInput method) (TimeseriesInput method) set_column_map() (ColumnMapper method) set_column_prefix_dictionary() (ColumnMapper method) set_contents() (BidsFile method) (BidsSidecarFile method) (BidsTabularFile method) set_data_io() (HedTags method) (HedValueVector method) set_definitions() (ProcessServices static method) set_end() (TemporalEvent method) set_hed_strings() (ColumnMetadata method) set_input_from_dict() (BaseOperations method) (EventOperations method) (SchemaOperations method) (SidecarOperations method) (SpreadsheetOperations method) (StringOperations method)

set_input_from_request() (ProcessServices static method) set_input_objects() (ProcessForm static method) (ProcessServices static method) set_json_files() (ProcessForm static method) set_modified() (HedTags method) (HedValueVector method) set_parameters() (ProcessServices static method) set_queries() (ProcessForm static method) (ProcessServices static method) set_remodel_parameters() (ProcessServices static method) set_schema_from_request() (ProcessForm static method) set_schema_from_version() (ProcessForm static method) set_schema_prefix() (HedSchema method) set_sidecar() (BidsTabularFile method) (ProcessServices static method) set_tag_columns() (ColumnMapper method) set_tsv_schema() (ProcessForm static method) set_value() (HedTagCount method) shape (HedTags property) (HedValueVector property) short_base_tag (HedTag property) short_tag (HedTag property) short_tag_name (HedTagEntry attribute) shrink_defs() (BaseInput method) (HedString method) (in module hed.models.df_util) (SpreadsheetInput method) (TabularInput method) (TimeseriesInput method) sidecar Sidecar (class in hed.models.sidecar) Sidecar class sidecar file sidecar validation SIDECAR_AND_OTHER_COLUMNS (ValidationErrors attribute) SIDECAR_BRACES_INVALID (SidecarErrors attribute) sidecar_column_data (ColumnMapper property) SIDECAR_COLUMN_NAME (ErrorContext attribute) sidecar_convert() (SidecarOperations method) sidecar_dict (BidsFileGroup attribute) sidecar_dir_dict (BidsFileGroup attribute) sidecar_extract() (SidecarOperations method) SIDECAR_HED_USED (SidecarErrors attribute) SIDECAR_INVALID (ValidationErrors attribute) SIDECAR_KEY_MISSING (ValidationErrors attribute) SIDECAR_KEY_NAME (ErrorContext attribute) sidecar_merge() (SidecarOperations method) SIDECAR_NA_USED (SidecarErrors attribute) sidecar_validate() (SidecarOperations method) SidecarErrors (class in hed.errors.error_types) SidecarOperations (class in hedweb.sidecar_operations) sidecars_results() (in module hedweb.routes) SidecarValidator (class in hed.validator.sidecar_validator) SIUnit (HedKey attribute) SIUnitModifier (HedKey attribute) SIUnitSymbolModifier (HedKey attribute) sort() (HedGroup method) (HedString method) sort_dataframe_by_onsets() (in module hed.models.df_util) sort_issues() (in module hed.errors.error_reporter) sorted() (HedGroup method) (HedString method) source_dict (ColumnMetadata property) SOURCES (SchemaComparer attribute), [1] span (HedGroup property) (HedString property) split_delay_tags() (in module hed.models.df_util) split_hed_string() (HedString static method) split_into_groups() (HedString static method) split_name() (HedTypeDefs static method) SplitRowsOp (class in remodeler.operations.split_rows_op) spreadsheet templates spreadsheet_convert() (SpreadsheetOperations method) spreadsheet_validate() (SpreadsheetOperations method) SpreadsheetInput (class in hed.models.spreadsheet_input) SpreadsheetOperations (class in hedweb.spreadsheet_operations) spreadsheets_results() (in module hedweb.routes) SpreadsheetValidator (class in hed.validator.spreadsheet_validator) start_check() (ComplianceSummary method) STIMULUS_ROLES (EventChecker attribute) str_list_to_hed() (EventManager method) str_to_tabular() (in module hed.tools.analysis.annotation_util) string_search() (in module hed.models.string_search) StringNode (class in hed.models.string_search) StringOperations (class in hedweb.string_operations) StringQueryHandler (class in hed.models.string_search) StringRange (HedKey attribute) strings_results() (in module hedweb.routes) StringValidator (class in hed.validator.util.string_util) strs_to_hed_objs() (in module hed.tools.analysis.annotation_util) strs_to_sidecar() (in module hed.tools.analysis.annotation_util) STYLE_WARNING (ValidationErrors attribute) suffix (BidsFile attribute) (BidsFileGroup attribute) SuggestedTag (HedKey attribute) summarize() (BidsFileGroup method) summarize_all() (HedTypeManager method) SummarizeColumnNamesOp (class in remodeler.operations.summarize_column_names_op) SummarizeColumnValuesOp (class in remodeler.operations.summarize_column_values_op) SummarizeDefinitionsOp (class in remodeler.operations.summarize_definitions_op) SummarizeHedTagsOp (class in remodeler.operations.summarize_hed_tags_op) SummarizeHedTypeOp (class in remodeler.operations.summarize_hed_type_op) SummarizeHedValidationOp (class in remodeler.operations.summarize_hed_validation_op) SummarizeSidecarFromEventsOp (class in remodeler.operations.summarize_sidecar_from_events_op) summary column values experimental design HED HED tags SUMMARY_TYPE (SummarizeColumnNamesOp attribute) (SummarizeColumnValuesOp attribute) (SummarizeDefinitionsOp attribute) (SummarizeHedTagsOp attribute) (SummarizeHedTypeOp attribute) (SummarizeHedValidationOp attribute) (SummarizeSidecarFromEventsOp attribute) support SVG format, [1], [2]

T

TABLE_NAME (ErrorContext attribute) tabular data, [1] TabularInput, [1] (class in hed.models.tabular_input) TabularSummary (class in hed.tools.analysis.tabular_summary) tag filtering, [1], [2] HED tag (HedTag property) tag counts tag frequency, [1], [2], [3], [4] tag template, [1], [2] TAG_ALLOWED_CHARS (CharRexValidator attribute) (CharValidator attribute) tag_columns (ColumnMapper property) TAG_EMPTY (ValidationErrors attribute) tag_exists_in_schema() (HedTag method) TAG_EXPRESSION_REPEATED (ValidationErrors attribute) TAG_EXTENDED (ValidationErrors attribute) TAG_EXTENSION_INVALID (ValidationErrors attribute) TAG_GROUP_ERROR (ValidationErrors attribute) TAG_INVALID (ValidationErrors attribute) tag_modified() (HedTag method) TAG_NAMESPACE_PREFIX_INVALID (ValidationErrors attribute) TAG_NOT_UNIQUE (ValidationErrors attribute) TAG_REQUIRES_CHILD (ValidationErrors attribute) TagDomain (HedKey attribute) TagGroup (HedKey attribute) TagRange (HedKey attribute) tags (HedSchema property) Tags (HedSectionKey attribute) TAGS (TopTagReturnType attribute), [1] tags() (HedGroup method) (HedString method) (StringNode method) TagValidator (class in hed.validator.util.tag_util) TakesValue (HedKey attribute) target_cols (KeyMap attribute) TASK_ROLES (EventChecker attribute) TEMPORAL_ANCHORS (SpreadsheetValidator attribute) TEMPORAL_KEYS (DefTagNames attribute) TEMPORAL_TAG_ERROR (ValidationErrors attribute) TemporalEvent (class in hed.tools.analysis.temporal_event)

TEXT_EXTENSION (BaseInput attribute) (SpreadsheetInput attribute) (TabularInput attribute) (TimeseriesInput attribute) TEXT_VALUE_CLASS (UnitValueValidator attribute) TILDES_UNSUPPORTED (ValidationErrors attribute) TIMELINE_KEYS (DefTagNames attribute) TimeseriesInput (class in hed.models.timeseries_input) to_bytes() (ErrorSeverity method) (TopTagReturnType method) to_csv() (BaseInput method) (SpreadsheetInput method) (TabularInput method) (TimeseriesInput method) to_dict() (HedTypeCount method) (VisualizationConfig method), [1] (WordCloudConfig method), [1] to_excel() (BaseInput method) (SpreadsheetInput method) (TabularInput method) (TimeseriesInput method) to_factor() (in module hed.tools.analysis.annotation_util) to_strlist() (in module hed.tools.analysis.annotation_util) tool overview TopLevelTagGroup (HedKey attribute) TopTagReturnType (class in hed.models.model_constants) total_entries_checked (ComplianceSummary property) total_events (HedType property) total_issues (ComplianceSummary property) transform() (HedTags method) (HedValueVector method) troubleshooting, [1], [2] tsv files TSV_COLUMN_MISSING (ValidationErrors attribute) tutorial, [1] type_def_names (HedTypeDefs property) type_hierarchy() (HedTags class method) (HedValueVector class method) type_names (HedTypeDefs property) type_variables (HedType property) types (HedTypeManager property) TypeScript HED JavaScript HED MCP

U

unfold_context() (EventManager method) Unique (HedKey attribute) unit_class_entry (UnitEntry attribute) unit_classes (HedSchema property) (HedTag property) (HedTagEntry attribute) unit_modifiers (HedSchema property) (UnitEntry attribute) UnitClass (HedKey attribute) UnitClassDomain (HedKey attribute) UnitClassEntry (class in hed.schema.hed_schema_entry) UnitClasses (HedSectionKey attribute) UnitClassProperty (HedKeyOld attribute) UnitClassRange (HedKey attribute) UnitDomain (HedKey attribute) UnitEntry (class in hed.schema.hed_schema_entry) UnitModifierDomain (HedKey attribute) UnitModifierProperty (HedKeyOld attribute) UnitModifiers (HedSectionKey attribute) UnitPrefix (HedKey attribute) UnitProperty (HedKeyOld attribute) UnitRange (HedKey attribute) units (HedSchema property)

Units (HedSectionKey attribute) units (UnitClassEntry attribute) UNITS_INVALID (ValidationErrors attribute) UnitSymbol (HedKey attribute) UnitValueValidator (class in hed.validator.util.class_util) Unknown (ColumnType attribute) UNKNOWN_COLUMN_TYPE (SidecarErrors attribute) update() (ColumnNameSummary method) (HedTypeCount method) (HedTypeCounts method) (KeyMap method) (SequenceMap method) (TabularSummary method) update_entity() (in module hed.tools.bids.bids_util) update_headers() (ColumnNameSummary method) update_summary() (BaseSummary method) (HedTypeCounts method) (TabularSummary method) update_tag_counts() (HedTagCounts method) update_tags() (EventsSummary method) URL_ERROR (HedExceptions attribute) use_mask (WordCloudConfig attribute), [1], [2] user guide, [1], [2]

V

val_error_unknown() (ErrorHandler method) valid_attributes (HedSchemaSection attribute) valid_operations (in module remodeler.operations.valid_operations) valid_prefixes (HedSchema property) (HedSchemaBase property) (HedSchemaGroup property) validate method validate() (BaseInput method) (BidsDataset method) (BidsFileGroup method) (EventOperations method) (HedString method) (HedValidator method) (RemodelerValidator method) (SchemaOperations method) (Sidecar method) (SidecarValidator method) (SpreadsheetInput method) (SpreadsheetValidator method) (StringOperations method) (TabularInput method) (TimeseriesInput method) validate_datafiles() (BidsFileGroup method) validate_def_tags() (DefValidator method) validate_def_value_units() (DefValidator method) validate_duration_tags() (GroupValidator static method) validate_event_tags() (EventsChecker method) validate_input_data() (BaseOp static method) (ConvertColumnsOp static method) (FactorColumnOp static method) (FactorHedTagsOp static method) (FactorHedTypeOp static method) (MergeConsecutiveOp static method) (NumberGroupsOp static method) (NumberRowsOp static method) (RemapColumnsOp static method) (RemoveColumnsOp static method) (RemoveRowsOp static method) (RenameColumnsOp static method) (ReorderColumnsOp static method) (SplitRowsOp static method) (SummarizeColumnNamesOp static method) (SummarizeColumnValuesOp static method) (SummarizeDefinitionsOp static method) (SummarizeHedTagsOp static method) (SummarizeHedTypeOp static method) (SummarizeHedValidationOp static method) (SummarizeSidecarFromEventsOp static method) validate_onset_offset() (DefValidator method)

validate_sidecars() (BidsFileGroup method) validate_structure() (SidecarValidator method) validate_temporal_relations() (OnsetValidator method) validate_units() (HedValidator method) validate_value_class_type() (UnitValueValidator method) validateEvents validateSidecar validateTags validation BIDS HED, [1], [2] HED strings JavaScript MCP NWB strategies what is validation tools, [1] validation workflow ValidationErrors (class in hed.errors.error_types) Value (ColumnType attribute) value_as_default_unit() (HedTag method) value_classes (HedSchema property) (HedTag property) (HedTagEntry attribute) VALUE_INVALID (ValidationErrors attribute) ValueClass (HedKey attribute) ValueClassDomain (HedKey attribute) ValueClasses (HedSectionKey attribute) ValueClassProperty (HedKeyOld attribute) ValueClassRange (HedKey attribute) values() (HedSchemaSection method) (HedSchemaTagSection method) (HedSchemaUnitClassSection method) (HedSchemaUnitSection method) VALUES_PER_LINE (SummarizeColumnValuesOp attribute) verify_tag_id() (HedIDValidator method) version (HedSchema property) version management VERSION_DEPRECATED (ValidationErrors attribute) version_number (HedSchema property) visualization publication-ready, [1] VisualizationConfig, [1] (class in hedvis.core.visualization_config), [1] visualize_from_counts() (HedTagVisualizer method), [1] visualize_from_dataframe visualize_from_dataframe() (HedTagVisualizer method), [1] visualize_from_tabular() (HedTagVisualizer method), [1]

W

walk_back() (in module hed.tools.bids.bids_util) WARNING (ErrorSeverity attribute) web services width (WordCloudConfig attribute), [1], [2] WIKI_DELIMITERS_INVALID (HedExceptions attribute) WIKI_LINE_INVALID (HedExceptions attribute) WIKI_LINE_START_INVALID (HedExceptions attribute) WIKI_SEPARATOR_INVALID (HedExceptions attribute) with_standard (HedSchema property) with_traceback() (HedFileError method) Word cloud word cloud, [1] shaped, [1]

word frequency, [1] word_cloud (VisualizationConfig attribute), [1], [2] word_cloud_to_svg word_cloud_to_svg() (in module hedvis.generators.word_cloud), [1] WordCloudConfig (class in hedvis.core.visualization_config), [1] workflows worksheet_name (BaseInput property) (SpreadsheetInput property) (TabularInput property) (TimeseriesInput property) WRONG_HED_DATA_TYPE (SidecarErrors attribute)