Index

_

__call__() (src.neurodags.derivatives.DerivativeEntry method) __commit_id__ (in module src.neurodags._version) __repr__() (src.neurodags.derivatives.DerivativeEntry method) __version__ (in module src.neurodags) (in module src.neurodags._version) __version_tuple__ (in module src.neurodags._version) _add_common_execution_args() (in module src.neurodags.cli) _app (src.neurodags.tui._LiveLogWriter attribute) _artifact_candidates_for() (in module src.neurodags.dag) _assemble_dataframe() (src.neurodags.tui.NeuroDagsApp method) _BaseSafeLoader (in module src.neurodags.loaders) _BLANK (in module src.neurodags.tui) _buf (src.neurodags.tui._LiveLogWriter attribute) _build_dataframe_sync() (in module src.neurodags.tui) _build_metadata() (in module src.neurodags.nodes.descriptive) _build_reference_base() (in module src.neurodags.orchestrators) _cmd_count() (in module src.neurodags.cli) _cmd_dag() (in module src.neurodags.cli) _cmd_dataframe() (in module src.neurodags.cli) _cmd_run() (in module src.neurodags.cli) _cmd_slurm_script() (in module src.neurodags.cli) _cmd_tui() (in module src.neurodags.cli) _cmd_validate() (in module src.neurodags.cli) _cmd_view() (in module src.neurodags.cli) _coerce_level() (in module src.neurodags.loggers) _collect_id_refs() (in module src.neurodags.dag) (in module src.neurodags.mermaid) _compute_figure() (in module src.neurodags.visualization) _compute_png_image() (in module src.neurodags.visualization) _compute_rgba_image() (in module src.neurodags.visualization) _config (src.neurodags.tui.NeuroDagsApp attribute) _config_path (src.neurodags.tui.NeuroDagsApp attribute) _CONFIGURED (in module src.neurodags.loggers) _controls_for_variable() (in module src.neurodags.visualization) _datasets_path (src.neurodags.tui.NeuroDagsApp attribute) _decode_png_hex() (in module src.neurodags.visualization) _derivative_topo_order() (in module src.neurodags.orchestrators) _derivatives (src.neurodags.tui.NeuroDagsApp attribute) _df (src.neurodags.tui.NeuroDagsApp attribute) _FileJob (class in src.neurodags.orchestrators) _FileResult (class in src.neurodags.orchestrators) _flatten_dataarray_payload() (in module src.neurodags.dag) _FlattenedArtifactColumns (class in src.neurodags.dag) _format_coord_value() (in module src.neurodags.dag) _format_meas_date() (in module src.neurodags.nodes.descriptive) _gen_aperiodic_log() (in module src.neurodags.nodes.spectral) _handle_load_config() (src.neurodags.tui.NeuroDagsApp method) _HIDE (in module src.neurodags.visualization) _HTML_TEMPLATE (in module src.neurodags.mermaid)

_ID_REF (in module src.neurodags.dag) (in module src.neurodags.mermaid) _InspectableStatic (class in src.neurodags.tui) _is_id_ref() (in module src.neurodags.dag) _is_png_hex_var() (in module src.neurodags.visualization) _is_rgba_var() (in module src.neurodags.visualization) _is_step_cached() (in module src.neurodags.dag) _json_safe() (in module src.neurodags.writers) _launch_nc_viewer() (src.neurodags.tui.NeuroDagsApp method) _LiveLogWriter (class in src.neurodags.tui) _load_config() (src.neurodags.tui.NeuroDagsApp method) _load_from_path() (in module src.neurodags.dag) _load_pipeline_config() (in module src.neurodags.cli) _LOADED_SOURCES (in module src.neurodags.nodes.loader) _log (src.neurodags.tui._LiveLogWriter attribute) _make_dim_controls() (in module src.neurodags.visualization) _MissingPrecomputedArtifacts _ndindex() (in module src.neurodags.dag) _ndindex_fallback() (in module src.neurodags.dag) _open_dag_html() (src.neurodags.tui.NeuroDagsApp method) _parse_int() (in module src.neurodags.tui) _prep_kwargs() (in module src.neurodags.dag) _process_file_job() (in module src.neurodags.orchestrators) _refresh_dag() (src.neurodags.tui.NeuroDagsApp method) _resolve_derivative_artifacts() (in module src.neurodags.dag) _resolve_derivatives() (in module src.neurodags.cli) _resolve_eval_strings() (in module src.neurodags.utils) _resolve_fooof_dataarray() (in module src.neurodags.nodes.spectral) _resolve_psd_dataarray() (in module src.neurodags.nodes.spectral) _resolve_reference_base() (in module src.neurodags.orchestrators) _resolve_refs() (in module src.neurodags.dag) _run_dry_run() (src.neurodags.tui.NeuroDagsApp method) _run_pipeline() (src.neurodags.tui.NeuroDagsApp method) _run_pipeline_sync() (in module src.neurodags.tui) _safe_label() (in module src.neurodags.mermaid) _sanitize_reference_base() (in module src.neurodags.orchestrators) _save_dataframe() (in module src.neurodags.cli) (src.neurodags.tui.NeuroDagsApp method) _SHOW (in module src.neurodags.visualization) _simplify_artifact_payload() (in module src.neurodags.dag) _simplify_value() (in module src.neurodags.dag) _slurm_chained() (in module src.neurodags.cli) _slurm_flat() (in module src.neurodags.cli) _slurm_per_file() (in module src.neurodags.cli) _SPATIAL_DIMS (in module src.neurodags.visualization) _split_derivative_ref() (in module src.neurodags.dag) _sync_derivative_selects() (src.neurodags.tui.NeuroDagsApp method) _topo_order() (in module src.neurodags.dag) _unique_module_name() (in module src.neurodags.nodes.loader) _unwrap_for_arg() (in module src.neurodags.dag)

A

add() (in module src.neurodags.example) aggregate_across_dimension() (in module src.neurodags.nodes.operations) analyze_bids_filename() (in module src.neurodags.utils)

apply_1d() (in module src.neurodags.nodes.factories) apply_transform() (in module src.neurodags.visualization) Artifact (class in src.neurodags.definitions) artifacts (src.neurodags.definitions.NodeResult attribute)

B

band_ratios() (in module src.neurodags.nodes.spectral) bandpower() (in module src.neurodags.nodes.spectral) bandpower_corrected() (in module src.neurodags.nodes.spectral) basic_preprocessing() (in module src.neurodags.nodes.preprocessing)

binarize_with_median() (in module src.neurodags.nodes.operations) build_derivative_dataframe() (in module src.neurodags.orchestrators) build_parser() (in module src.neurodags.cli) (in module src.neurodags.visualization) build_visualization_app() (in module src.neurodags.visualization)

C

clear_derivative_registry() (in module src.neurodags.derivatives) clear_node_registry() (in module src.neurodags.nodes) collect_derivative_for_dataframe() (in module src.neurodags.dag) commit_id (in module src.neurodags._version)

common_root (src.neurodags.orchestrators._FileJob attribute) compose() (src.neurodags.tui.NeuroDagsApp method) configure_logging() (in module src.neurodags.loggers) construct_mapping() (src.neurodags.loaders.UniqueKeySafeLoader method) custom_node_paths (src.neurodags.orchestrators._FileJob attribute)

D

data (in module src.neurodags.nodes.operations) dataset (src.neurodags.orchestrators._FileJob attribute) (src.neurodags.orchestrators._FileResult attribute) dataset_config (src.neurodags.orchestrators._FileJob attribute) DatasetConfig (class in src.neurodags.definitions) DatasetConfig.Config (class in src.neurodags.definitions) DEFAULT_BANDS (in module src.neurodags.nodes.spectral) definition (src.neurodags.derivatives.DerivativeEntry attribute) derivative_definition (src.neurodags.orchestrators._FileJob attribute) derivative_label (src.neurodags.orchestrators._FileJob attribute) (src.neurodags.orchestrators._FileResult attribute)

derivative_name (src.neurodags.orchestrators._FileJob attribute) derivative_to_html() (in module src.neurodags.mermaid) derivative_to_mermaid() (in module src.neurodags.mermaid) DerivativeEntry (class in src.neurodags.derivatives) derivatives_path (src.neurodags.definitions.DatasetConfig attribute) discover() (in module src.neurodags.nodes) dry_run (src.neurodags.orchestrators._FileJob attribute) dry_run_payload (src.neurodags.orchestrators._FileResult attribute) dummy() (in module src.neurodags.nodes.dummy)

E

error_message (src.neurodags.orchestrators._FileResult attribute) error_type (src.neurodags.orchestrators._FileResult attribute) exclude_pattern (src.neurodags.definitions.DatasetConfig attribute)

extra (src.neurodags.definitions.DatasetConfig.Config attribute) extract_data_var() (in module src.neurodags.nodes.operations) extract_meeg_metadata() (in module src.neurodags.nodes.descriptive)

F

file_path (src.neurodags.orchestrators._FileJob attribute) (src.neurodags.orchestrators._FileResult attribute) file_pattern (src.neurodags.definitions.DatasetConfig attribute) find_unique_root() (in module src.neurodags.utils) flush() (src.neurodags.tui._LiveLogWriter method)

fooof() (in module src.neurodags.nodes.spectral) fooof_component() (in module src.neurodags.nodes.spectral) fooof_peaks() (in module src.neurodags.nodes.spectral) fooof_scalars() (in module src.neurodags.nodes.spectral) func (src.neurodags.derivatives.DerivativeEntry attribute)

G

generate_1_over_f_noise() (in module src.neurodags.datasets) generate_dummy_dataset() (in module src.neurodags.datasets) get_all_files_across_datasets() (in module src.neurodags.iterators) get_all_files_from_pipeline_configuration() (in module src.neurodags.iterators) get_datasets_and_mount_point_from_pipeline_configuration() (in module src.neurodags.datasets) get_derivative() (in module src.neurodags.derivatives)

get_dummy_epochs() (in module src.neurodags.datasets) get_dummy_raw() (in module src.neurodags.datasets) get_files_from_pattern() (in module src.neurodags.iterators) get_logger() (in module src.neurodags.loggers) get_node() (in module src.neurodags.nodes) get_num_digits() (in module src.neurodags.utils) get_path() (in module src.neurodags.utils)

I

index (src.neurodags.orchestrators._FileJob attribute) (src.neurodags.orchestrators._FileResult attribute) is_node (src.neurodags.orchestrators._FileJob attribute)

item (src.neurodags.definitions.Artifact attribute) iter_derivatives() (in module src.neurodags.derivatives) iter_nodes() (in module src.neurodags.nodes) iterate_derivative_pipeline() (in module src.neurodags.orchestrators)

K

keep_channels() (in module src.neurodags.nodes.preprocessing)

L

list_derivatives() (in module src.neurodags.derivatives) list_nodes() (in module src.neurodags.nodes) load_configuration() (in module src.neurodags.loaders) load_meeg() (in module src.neurodags.loaders) load_node_definitions() (in module src.neurodags.nodes.loader) load_visualization_dataset() (in module src.neurodags.visualization) log (in module src.neurodags.dag) (in module src.neurodags.derivatives.pipeline) (in module src.neurodags.iterators) (in module src.neurodags.loaders) (in module src.neurodags.nodes.descriptive) (in module src.neurodags.nodes.loader) (in module src.neurodags.nodes.operations) (in module src.neurodags.nodes.preprocessing) (in module src.neurodags.nodes.spectral) (in module src.neurodags.orchestrators) (in module src.neurodags.utils) (in module src.neurodags.writers)

M

main() (in module src.neurodags.cli) (in module src.neurodags.tui) (in module src.neurodags.visualization) make_dropdown() (in module src.neurodags.visualization) make_dummy_dataset() (in module src.neurodags.datasets) mean_across_dimension() (in module src.neurodags.nodes.operations) meeg_to_xarray() (in module src.neurodags.nodes.descriptive) mne_spectrum() (in module src.neurodags.nodes.spectral) mne_spectrum_array() (in module src.neurodags.nodes.spectral) module src.neurodags src.neurodags._version src.neurodags.cli src.neurodags.dag src.neurodags.datasets src.neurodags.definitions src.neurodags.derivatives src.neurodags.derivatives.pipeline src.neurodags.example src.neurodags.iterators src.neurodags.loaders src.neurodags.loggers src.neurodags.mermaid src.neurodags.nodes src.neurodags.nodes.antropy src.neurodags.nodes.descriptive src.neurodags.nodes.dummy src.neurodags.nodes.factories src.neurodags.nodes.loader src.neurodags.nodes.neurokit src.neurodags.nodes.operations src.neurodags.nodes.preprocessing src.neurodags.nodes.spectral src.neurodags.nodes.stats src.neurodags.orchestrators src.neurodags.tui src.neurodags.utils src.neurodags.visualization src.neurodags.writers

mount_point (src.neurodags.orchestrators._FileJob attribute)

N

name (src.neurodags.definitions.DatasetConfig attribute) (src.neurodags.derivatives.DerivativeEntry attribute) NeuroDagsApp (class in src.neurodags.tui)

node_name (src.neurodags.orchestrators._FileJob attribute) NodeResult (class in src.neurodags.definitions) np (in module src.neurodags.dag)

O

on_button_pressed() (src.neurodags.tui.NeuroDagsApp method)

on_mount() (src.neurodags.tui.NeuroDagsApp method)

P

parser (in module src.neurodags.orchestrators) PathLike (in module src.neurodags.definitions)

pipeline_to_html() (in module src.neurodags.mermaid) pipeline_to_mermaid() (in module src.neurodags.mermaid)

R

register_derivative() (in module src.neurodags.derivatives) register_derivative_with_name() (in module src.neurodags.derivatives) register_derivatives_from_dict() (in module src.neurodags.derivatives.pipeline) register_derivatives_from_yaml() (in module src.neurodags.dag) register_node() (in module src.neurodags.nodes) register_node_with_name() (in module src.neurodags.nodes)

render() (src.neurodags.tui._InspectableStatic method) replace_bids_suffix() (in module src.neurodags.utils) replace_brainvision_filename() (in module src.neurodags.datasets) RulesLike (in module src.neurodags.definitions) run_derivative() (in module src.neurodags.dag) run_pipeline() (in module src.neurodags.orchestrators)

S

safe_sel() (in module src.neurodags.visualization) save_dict_to_json() (in module src.neurodags.writers) save_dummy_vhdr() (in module src.neurodags.datasets) save_mermaid_html() (in module src.neurodags.mermaid) skip (src.neurodags.definitions.DatasetConfig attribute) skip_errors (src.neurodags.orchestrators._FileJob attribute) slice_xarray() (in module src.neurodags.nodes.operations) snake_to_camel() (in module src.neurodags.utils) src.neurodags module src.neurodags._version module src.neurodags.cli module src.neurodags.dag module src.neurodags.datasets module src.neurodags.definitions module src.neurodags.derivatives module src.neurodags.derivatives.pipeline module src.neurodags.example module src.neurodags.iterators module src.neurodags.loaders module src.neurodags.loggers module src.neurodags.mermaid module

src.neurodags.nodes module src.neurodags.nodes.antropy module src.neurodags.nodes.descriptive module src.neurodags.nodes.dummy module src.neurodags.nodes.factories module src.neurodags.nodes.loader module src.neurodags.nodes.neurokit module src.neurodags.nodes.operations module src.neurodags.nodes.preprocessing module src.neurodags.nodes.spectral module src.neurodags.nodes.stats module src.neurodags.orchestrators module src.neurodags.tui module src.neurodags.utils module src.neurodags.visualization module src.neurodags.writers module stage (src.neurodags.orchestrators._FileResult attribute) success (src.neurodags.orchestrators._FileResult attribute)

T

this_file (in module src.neurodags.derivatives.pipeline)

this_yaml (in module src.neurodags.derivatives.pipeline) traceback (src.neurodags.orchestrators._FileResult attribute)

U

UniqueKeySafeLoader (class in src.neurodags.loaders)

unregister_derivative() (in module src.neurodags.derivatives) unregister_node() (in module src.neurodags.nodes)

V

version (in module src.neurodags._version)

version_tuple (in module src.neurodags._version)

W

write() (src.neurodags.tui._LiveLogWriter method)

writer (src.neurodags.definitions.Artifact attribute)

X

xarray_factory() (in module src.neurodags.nodes.factories)

xr (in module src.neurodags.dag) (in module src.neurodags.writers)

Y

yaml_definitions (in module src.neurodags.derivatives.pipeline)