Index

_

__hash__ (coco_pipe.decoding.ExperimentConfig attribute) (coco_pipe.io.DataContainer attribute)

__iter__() (coco_pipe.decoding.ExperimentConfig method)

A

AccordionElement (class in coco_pipe.report.elements) accuracy_color_limits() (in module coco_pipe.viz.base) activation (coco_pipe.decoding.configs.MLPMixin attribute) AdaBoostClassifierConfig (class in coco_pipe.decoding.configs) AdaBoostRegressorConfig (class in coco_pipe.decoding.configs) add_aggregated_band_ratios() (in module coco_pipe.descriptors.tables) add_columns() (coco_pipe.report.Section method) add_comparison() (coco_pipe.report.Report method) (in module coco_pipe.report.dim_reduction) add_container() (coco_pipe.report.Report method) add_decoding_diagnostics() (coco_pipe.report.Report method) (in module coco_pipe.report.decoding) add_decoding_features() (coco_pipe.report.Report method) (in module coco_pipe.report.decoding) add_decoding_neural_artifacts() (coco_pipe.report.Report method) (in module coco_pipe.report.decoding) add_decoding_overview() (coco_pipe.report.Report method) (in module coco_pipe.report.decoding) add_decoding_performance() (coco_pipe.report.Report method) (in module coco_pipe.report.decoding) add_decoding_statistical_assessment() (coco_pipe.report.Report method) (in module coco_pipe.report.decoding) add_decoding_summary() (coco_pipe.report.Report method) (in module coco_pipe.report.decoding) add_decoding_temporal() (coco_pipe.report.Report method) (in module coco_pipe.report.decoding) add_decoding_topomaps() (coco_pipe.report.Report method) (in module coco_pipe.report.decoding) add_element() (coco_pipe.report.elements.ContainerElement method) (coco_pipe.report.Report method) (coco_pipe.report.Section method) add_family_diagnostics() (in module coco_pipe.descriptors.qc) add_figure() (coco_pipe.report.Report method) add_finding() (coco_pipe.report.Section method) add_markdown() (coco_pipe.report.elements.ContainerElement method) (coco_pipe.report.Report method) (coco_pipe.report.Section method) add_raw_preview() (coco_pipe.report.Report method) add_reduction() (coco_pipe.report.Report method) (in module coco_pipe.report.dim_reduction) add_reduction_components() (coco_pipe.report.Report method) (in module coco_pipe.report.dim_reduction) add_reduction_coranking() (coco_pipe.report.Report method) (in module coco_pipe.report.dim_reduction) add_reduction_diagnostics() (coco_pipe.report.Report method) (in module coco_pipe.report.dim_reduction) add_reduction_embedding() (coco_pipe.report.Report method) (in module coco_pipe.report.dim_reduction) add_reduction_interpretation() (coco_pipe.report.Report method) (in module coco_pipe.report.dim_reduction)

add_reduction_metrics() (coco_pipe.report.Report method) (in module coco_pipe.report.dim_reduction) add_reduction_overview() (coco_pipe.report.Report method) (in module coco_pipe.report.dim_reduction) add_reduction_trajectory() (coco_pipe.report.Report method) (in module coco_pipe.report.dim_reduction) add_reduction_trajectory_separation() (coco_pipe.report.Report method) (in module coco_pipe.report.dim_reduction) add_section() (coco_pipe.report.Report method) add_summary_card() (coco_pipe.report.Report method) affinity (coco_pipe.dim_reduction.config.SpectralEmbeddingConfig attribute) aggregate() (coco_pipe.io.DataContainer method) aggregate_family_qc() (in module coco_pipe.descriptors.qc) aggregate_groups() (coco_pipe.io.DataContainer method) aggregate_predictions_for_inference() (in module coco_pipe.decoding.stats) algorithm (coco_pipe.decoding.configs.KNeighborsClassifierConfig attribute) (coco_pipe.decoding.configs.KNeighborsRegressorConfig attribute) (coco_pipe.dim_reduction.config.DaskTruncatedSVDConfig attribute) (coco_pipe.dim_reduction.reducers.linear.DaskTruncatedSVDReducer attribute) allow_2d (coco_pipe.decoding.configs.GeneralizingEstimatorConfig attribute) (coco_pipe.decoding.configs.SlidingEstimatorConfig attribute) (coco_pipe.decoding.configs.TemporalDecoderConfig attribute) allow_nongroup_inner_cv (coco_pipe.decoding.configs.CalibrationConfig attribute) (coco_pipe.decoding.configs.FeatureSelectionConfig attribute) (coco_pipe.decoding.configs.TuningConfig attribute) alpha (coco_pipe.decoding.configs.ConfidenceIntervalConfig attribute) (coco_pipe.decoding.configs.ElasticNetConfig attribute) (coco_pipe.decoding.configs.GradientBoostingRegressorConfig attribute) (coco_pipe.decoding.configs.LassoConfig attribute) (coco_pipe.decoding.configs.LoRAConfig attribute) (coco_pipe.decoding.configs.MLPMixin attribute) (coco_pipe.decoding.configs.RidgeConfig attribute) (coco_pipe.decoding.configs.SGDMixin attribute) alpha_1 (coco_pipe.decoding.configs.ARDRegressionConfig attribute) (coco_pipe.decoding.configs.BayesianRidgeConfig attribute) alpha_2 (coco_pipe.decoding.configs.ARDRegressionConfig attribute) (coco_pipe.decoding.configs.BayesianRidgeConfig attribute) alpha_init (coco_pipe.decoding.configs.BayesianRidgeConfig attribute) aperiodic_mode (coco_pipe.descriptors.configs.ParametricDescriptorConfig attribute) apply_multiple_comparison_correction() (in module coco_pipe.decoding.stats) apply_pca_score_baseline() (in module coco_pipe.dim_reduction.preprocessing) ARDRegressionConfig (class in coco_pipe.decoding.configs) ArrayLike (in module coco_pipe.dim_reduction.reducers.base) assess_bootstrap_ci() (in module coco_pipe.decoding.stats) assess_paired_comparison() (in module coco_pipe.decoding.stats) assess_post_hoc_permutation() (in module coco_pipe.decoding.stats) AtomicEstimator (in module coco_pipe.decoding.configs) author (coco_pipe.report.config.ReportConfig attribute) auto_reduce_n_splits (coco_pipe.decoding.configs.CVConfig attribute)

B

backbone (coco_pipe.decoding.configs.FrozenBackboneDecoderConfig attribute) backbone_name (coco_pipe.decoding.configs.LPFTConfig attribute) backend (coco_pipe.decoding.configs.FoundationEmbeddingModelConfig attribute) (coco_pipe.decoding.configs.NeuralFineTuneConfig attribute) (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier attribute) (coco_pipe.decoding.foundation_models.estimators.FrozenBackboneTransformer attribute) (coco_pipe.decoding.foundation_models.extraction.FoundationEmbeddingExtractor attribute) (coco_pipe.descriptors.configs.ComplexityDescriptorConfig attribute) (coco_pipe.descriptors.configs.ParametricDescriptorConfig attribute) backend_ (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier attribute) (coco_pipe.decoding.foundation_models.estimators.FrozenBackboneTransformer attribute) backend_kwargs (coco_pipe.decoding.configs.FoundationEmbeddingModelConfig attribute) (coco_pipe.decoding.configs.NeuralFineTuneConfig attribute) (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier attribute) (coco_pipe.decoding.foundation_models.estimators.FrozenBackboneTransformer attribute) (coco_pipe.decoding.foundation_models.extraction.FoundationEmbeddingExtractor attribute) BadgeElement (class in coco_pipe.report.elements) balance() (coco_pipe.io.DataContainer method) BandDescriptorConfig (class in coco_pipe.descriptors.configs) BandDescriptorExtractor (class in coco_pipe.descriptors.extractors.spectral) bands (coco_pipe.descriptors.configs.BandDescriptorConfig attribute) (coco_pipe.descriptors.configs.DescriptorFamiliesConfig attribute) base (coco_pipe.decoding.configs.TemporalDecoderConfig attribute) base_estimator (coco_pipe.decoding.configs.GeneralizingEstimatorConfig attribute) (coco_pipe.decoding.configs.SlidingEstimatorConfig attribute) BaseDataset (class in coco_pipe.io.dataset) BaseDatasetConfig (class in coco_pipe.io.config) BaseDescriptorExtractor (class in coco_pipe.descriptors.extractors.base) BaseEstimatorConfig (class in coco_pipe.decoding.configs) baseline (coco_pipe.io.config.BIDSConfig attribute) (coco_pipe.io.dataset.BIDSDataset attribute) baseline_correction() (coco_pipe.io.DataContainer method) BasePSDDescriptorExtractor (class in coco_pipe.descriptors.extractors.base) BaseReducer (class in coco_pipe.dim_reduction) BaseReducerConfig (class in coco_pipe.dim_reduction.config) batch_size (coco_pipe.decoding.configs.LPFTConfig attribute) (coco_pipe.decoding.configs.MLPMixin attribute) (coco_pipe.decoding.configs.SkorchClassifierConfig attribute) (coco_pipe.decoding.configs.TrainerConfig attribute) (coco_pipe.decoding.foundation_models.extraction.FoundationEmbeddingExtractor attribute) (coco_pipe.dim_reduction.config.IncrementalPCAConfig attribute) (coco_pipe.dim_reduction.config.ParametricUMAPConfig attribute) (coco_pipe.dim_reduction.config.TopologicalAEConfig attribute) (coco_pipe.dim_reduction.reducers.linear.IncrementalPCAReducer attribute) (coco_pipe.dim_reduction.reducers.neighbor.ParametricUMAPReducer attribute) (coco_pipe.dim_reduction.reducers.topology.TopologicalAEReducer attribute)

BayesianRidgeConfig (class in coco_pipe.decoding.configs) benjamini_hochberg() (in module coco_pipe.decoding.stats) best_vals (coco_pipe.report.elements.MetricsTableElement attribute) beta_1 (coco_pipe.decoding.configs.MLPMixin attribute) beta_2 (coco_pipe.decoding.configs.MLPMixin attribute) BIDSConfig (class in coco_pipe.io.config) BIDSDataset (class in coco_pipe.io.dataset) BIDSPath (in module coco_pipe.io.utils) binomial_accuracy_test() (in module coco_pipe.decoding.stats) bootstrap (coco_pipe.decoding.configs.ExtraTreesRegressorConfig attribute) (coco_pipe.decoding.configs.RandomForestClassifierConfig attribute) (coco_pipe.decoding.configs.RandomForestRegressorConfig attribute) break_ties (coco_pipe.decoding.configs.SVCConfig attribute) build_auto_pooled_eval_spec() (in module coco_pipe.dim_reduction.pipeline) build_availability_record() (in module coco_pipe.dim_reduction.artifacts) build_caveats_section() (in module coco_pipe.report.decoding) build_comparison_section() (in module coco_pipe.report.decoding_comparison) build_configuration_section() (in module coco_pipe.report.decoding) build_cv_section() (in module coco_pipe.report.decoding) build_decoding_diagnostics_section() (in module coco_pipe.report.decoding) build_decoding_overview_section() (in module coco_pipe.report.decoding) build_decoding_sections() (in module coco_pipe.report.decoding) build_decoding_summary_section() (in module coco_pipe.report.decoding) build_descriptor_tables() (in module coco_pipe.descriptors.tables) build_eval_request() (in module coco_pipe.dim_reduction.pipeline) build_export_inventory_section() (in module coco_pipe.report.decoding) build_features_section() (in module coco_pipe.report.decoding) build_fit_diagnostics_section() (in module coco_pipe.report.decoding) build_fit_request() (in module coco_pipe.dim_reduction.pipeline) build_neural_section() (in module coco_pipe.report.decoding) build_performance_section() (in module coco_pipe.report.decoding) build_probability_section() (in module coco_pipe.report.decoding) build_provenance_section() (in module coco_pipe.report.decoding) build_qc_section() (in module coco_pipe.report.qc) build_record() (in module coco_pipe.dim_reduction.artifacts) build_result_tabs() (in module coco_pipe.report.decoding_comparison) build_statistical_section() (in module coco_pipe.report.decoding) build_temporal_section() (in module coco_pipe.report.decoding) build_topomaps_section() (in module coco_pipe.report.decoding) build_tuning_section() (in module coco_pipe.report.decoding) by (coco_pipe.report.decoding_comparison.ResultCollection attribute)

C

C (coco_pipe.decoding.configs.LinearSVCConfig attribute) (coco_pipe.decoding.configs.LogisticRegressionConfig attribute) (coco_pipe.decoding.configs.SupportVectorMixin attribute) cache_embeddings (coco_pipe.decoding.configs.FoundationEmbeddingModelConfig attribute) (coco_pipe.decoding.foundation_models.estimators.FrozenBackboneTransformer attribute) (coco_pipe.decoding.foundation_models.extraction.FoundationEmbeddingExtractor attribute) cache_size (coco_pipe.decoding.configs.SupportVectorMixin attribute) calibration (coco_pipe.decoding.ExperimentConfig attribute) CalibrationConfig (class in coco_pipe.decoding.configs) CalloutElement (class in coco_pipe.report.elements) capabilities (coco_pipe.descriptors.extractors.base.BaseDescriptorExtractor property) (coco_pipe.descriptors.extractors.complexity.ComplexityDescriptorExtractor property) (coco_pipe.descriptors.extractors.parametric.ParametricDescriptorExtractor property) (coco_pipe.descriptors.extractors.spectral.BandDescriptorExtractor property) (coco_pipe.dim_reduction.BaseReducer property) (coco_pipe.dim_reduction.DimReduction property) (coco_pipe.dim_reduction.reducers.linear.DaskPCAReducer property) (coco_pipe.dim_reduction.reducers.linear.DaskTruncatedSVDReducer property) (coco_pipe.dim_reduction.reducers.linear.IncrementalPCAReducer property) (coco_pipe.dim_reduction.reducers.linear.PCAReducer property) (coco_pipe.dim_reduction.reducers.manifold.IsomapReducer property) (coco_pipe.dim_reduction.reducers.manifold.LLEReducer property) (coco_pipe.dim_reduction.reducers.manifold.MDSReducer property) (coco_pipe.dim_reduction.reducers.manifold.SpectralEmbeddingReducer property) (coco_pipe.dim_reduction.reducers.neighbor.PacmapReducer property) (coco_pipe.dim_reduction.reducers.neighbor.ParametricUMAPReducer property) (coco_pipe.dim_reduction.reducers.neighbor.PHATEReducer property) (coco_pipe.dim_reduction.reducers.neighbor.TrimapReducer property) (coco_pipe.dim_reduction.reducers.neighbor.TSNEReducer property) (coco_pipe.dim_reduction.reducers.neighbor.UMAPReducer property) (coco_pipe.dim_reduction.reducers.neural.IVISReducer property) (coco_pipe.dim_reduction.reducers.spatiotemporal.DMDReducer property) (coco_pipe.dim_reduction.reducers.spatiotemporal.TRCAReducer property) (coco_pipe.dim_reduction.reducers.topology.TopologicalAEReducer property) CapabilityResult (class in coco_pipe.decoding.foundation_models.extraction) caption (coco_pipe.report.elements.ImageElement attribute) categorical_features (coco_pipe.decoding.configs.HistGradientBoostingClassifierConfig attribute) (coco_pipe.decoding.configs.HistGradientBoostingRegressorConfig attribute) ccp_alpha (coco_pipe.decoding.configs.DecisionTreeRegressorConfig attribute) (coco_pipe.decoding.configs.GradientBoostingMixin attribute) (coco_pipe.decoding.configs.TreeMixin attribute) center() (coco_pipe.io.DataContainer method) centered_color_limits() (in module coco_pipe.viz.base) ch_names (coco_pipe.decoding.configs.FoundationEmbeddingModelConfig attribute) (coco_pipe.decoding.configs.NeuralFineTuneConfig attribute) (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier attribute) (coco_pipe.decoding.foundation_models.estimators.FrozenBackboneTransformer attribute) chance (coco_pipe.decoding.configs.StatisticalAssessmentConfig attribute) ChanceAssessmentConfig (class in coco_pipe.decoding.configs) check_capability() (in module coco_pipe.decoding.foundation_models.extraction) check_constant_columns() (in module coco_pipe.io.quality) check_feature_column_consistency() (in module coco_pipe.descriptors.io) check_flatline() (in module coco_pipe.io.quality) check_missingness() (in module coco_pipe.io.quality) check_name (coco_pipe.io.quality.CheckResult attribute) check_outliers_zscore() (in module coco_pipe.io.quality) checkpoint_path_ (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier attribute) CheckpointConfig (class in coco_pipe.decoding.configs) checkpoints (coco_pipe.decoding.configs.NeuralFineTuneConfig attribute) (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier attribute) CheckResult (class in coco_pipe.io.quality) children (coco_pipe.report.elements.ContainerElement attribute) class_weight (coco_pipe.decoding.configs.LinearSVCConfig attribute) (coco_pipe.decoding.configs.LogisticRegressionConfig attribute) (coco_pipe.decoding.configs.NeuralFineTuneConfig attribute) (coco_pipe.decoding.configs.RandomForestClassifierConfig attribute) (coco_pipe.decoding.configs.SGDClassifierConfig attribute) (coco_pipe.decoding.configs.SVCConfig attribute) (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier attribute) ClassicalEstimatorConfig (class in coco_pipe.decoding.configs) ClassicalModelConfig (class in coco_pipe.decoding.configs) ClassicalModelType (in module coco_pipe.decoding.configs) classify_descriptor_columns() (in module coco_pipe.descriptors.qc) clean (coco_pipe.io.config.TabularConfig attribute) clean() (coco_pipe.io.dataset.TabularDataset static method) clean_kwargs (coco_pipe.io.config.TabularConfig attribute) (coco_pipe.io.dataset.TabularDataset attribute) clear_cache() (coco_pipe.decoding.foundation_models.extraction.FoundationEmbeddingExtractor method) clear_frozen_embedding_cache() (in module coco_pipe.decoding.foundation_models.estimators) coco_pipe module coco_pipe.decoding module coco_pipe.decoding.configs module coco_pipe.decoding.experiment module coco_pipe.decoding.foundation_models module coco_pipe.decoding.foundation_models.estimators module coco_pipe.decoding.foundation_models.extraction module coco_pipe.decoding.foundation_models.validation module coco_pipe.decoding.interfaces module coco_pipe.decoding.persistence module coco_pipe.decoding.registry module coco_pipe.decoding.result module coco_pipe.decoding.scalers module coco_pipe.decoding.stats module coco_pipe.decoding.targets module coco_pipe.descriptors module coco_pipe.descriptors.configs module coco_pipe.descriptors.core module coco_pipe.descriptors.extractors module coco_pipe.descriptors.extractors.base module coco_pipe.descriptors.extractors.complexity module coco_pipe.descriptors.extractors.parametric module coco_pipe.descriptors.extractors.spectral module coco_pipe.descriptors.io module coco_pipe.descriptors.naming module coco_pipe.descriptors.qc module coco_pipe.descriptors.tables module coco_pipe.descriptors.validation module coco_pipe.dim_reduction module coco_pipe.dim_reduction.analysis module coco_pipe.dim_reduction.artifacts module coco_pipe.dim_reduction.config module coco_pipe.dim_reduction.core module coco_pipe.dim_reduction.evaluation module coco_pipe.dim_reduction.evaluation.core module coco_pipe.dim_reduction.evaluation.geometry module coco_pipe.dim_reduction.evaluation.metrics module coco_pipe.dim_reduction.evaluation.result module coco_pipe.dim_reduction.evaluation.stats module coco_pipe.dim_reduction.evaluation.velocity module coco_pipe.dim_reduction.pipeline module coco_pipe.dim_reduction.preprocessing module coco_pipe.dim_reduction.reducers module coco_pipe.dim_reduction.reducers.base module

coco_pipe.dim_reduction.reducers.linear module coco_pipe.dim_reduction.reducers.manifold module coco_pipe.dim_reduction.reducers.neighbor module coco_pipe.dim_reduction.reducers.neural module coco_pipe.dim_reduction.reducers.spatiotemporal module coco_pipe.dim_reduction.reducers.topology module coco_pipe.io module coco_pipe.io.config module coco_pipe.io.dataset module coco_pipe.io.embeddings module coco_pipe.io.load module coco_pipe.io.provenance module coco_pipe.io.quality module coco_pipe.io.structures module coco_pipe.io.transform module coco_pipe.io.units module coco_pipe.io.utils module coco_pipe.report module coco_pipe.report.api module coco_pipe.report.config module coco_pipe.report.core module coco_pipe.report.decoding module coco_pipe.report.decoding_comparison module coco_pipe.report.descriptor_qc module coco_pipe.report.dim_reduction module coco_pipe.report.elements module coco_pipe.report.foundation module coco_pipe.report.qc module coco_pipe.utils module coco_pipe.viz module coco_pipe.viz.base module coco_pipe.viz.decoding module coco_pipe.viz.dim_reduction module coco_pipe.viz.interactive module coco_pipe.viz.interactive.base module coco_pipe.viz.interactive.decoding module coco_pipe.viz.interactive.dim_reduction module coco_pipe.viz.theme module coco_pipe_version (coco_pipe.report.config.ProvenanceConfig attribute) coco_theme() (in module coco_pipe.viz.theme) CodeBlockElement (class in coco_pipe.report.elements) coef0 (coco_pipe.decoding.configs.SupportVectorMixin attribute) col_sep (coco_pipe.io.config.TabularConfig attribute) (coco_pipe.io.dataset.TabularDataset attribute) collect() (coco_pipe.dim_reduction.evaluation.core.MethodSelector method) (coco_pipe.dim_reduction.evaluation.MethodSelector method) collect_payload() (coco_pipe.report.elements.ContainerElement method) (coco_pipe.report.elements.DownloadAssetElement method) (coco_pipe.report.elements.Element method) (coco_pipe.report.elements.InteractiveTableElement method) (coco_pipe.report.elements.PlotlyElement method) (coco_pipe.report.Report method) (coco_pipe.report.Section method) collect_results() (in module coco_pipe.report.decoding_comparison) color (coco_pipe.report.elements.BadgeElement attribute) (coco_pipe.report.elements.ProgressBarElement attribute) (coco_pipe.report.elements.StatCardElement attribute) ColorKind (in module coco_pipe.viz.theme) columns_to_dims (coco_pipe.io.config.TabularConfig attribute) (coco_pipe.io.dataset.TabularDataset attribute) ColumnsElement (class in coco_pipe.report.elements) combine_coords() (coco_pipe.io.DataContainer method) combined_embedding_table_path() (in module coco_pipe.io.embeddings) command (coco_pipe.report.config.ProvenanceConfig attribute) compare_models() (coco_pipe.decoding.ExperimentResult method) compare_models_paired() (coco_pipe.decoding.ExperimentResult method) completed_for_config() (in module coco_pipe.decoding.persistence) complexity (coco_pipe.descriptors.configs.DescriptorFamiliesConfig attribute) ComplexityDescriptorConfig (class in coco_pipe.descriptors.configs) ComplexityDescriptorExtractor (class in coco_pipe.descriptors.extractors.complexity) components_ (coco_pipe.dim_reduction.reducers.linear.DaskPCAReducer property) (coco_pipe.dim_reduction.reducers.linear.DaskTruncatedSVDReducer property) (coco_pipe.dim_reduction.reducers.linear.IncrementalPCAReducer property) (coco_pipe.dim_reduction.reducers.linear.PCAReducer property) compute_constant_feature_summary() (in module coco_pipe.io.utils) compute_coranking_matrix() (in module coco_pipe.dim_reduction.evaluation.metrics) compute_dtype (coco_pipe.decoding.configs.QuantizationConfig attribute) compute_family_constant_summary() (in module coco_pipe.descriptors.qc) compute_family_missingness() (in module coco_pipe.descriptors.qc) compute_feature_missingness() (in module coco_pipe.io.utils) compute_mrre() (in module coco_pipe.dim_reduction.evaluation.metrics) compute_row_outlier_scores() (in module coco_pipe.io.quality) compute_score (coco_pipe.decoding.configs.ARDRegressionConfig attribute) (coco_pipe.decoding.configs.BayesianRidgeConfig attribute) compute_subject_outlier_burden() (in module coco_pipe.io.quality) compute_velocity_fields() (in module coco_pipe.dim_reduction.evaluation.velocity) concat() (coco_pipe.io.DataContainer class method) conditions (coco_pipe.dim_reduction.evaluation.result.TrajectoryResult attribute) confidence_intervals (coco_pipe.decoding.configs.StatisticalAssessmentConfig attribute) ConfidenceIntervalConfig (class in coco_pipe.decoding.configs) config (coco_pipe.decoding.experiment.Experiment attribute) (coco_pipe.descriptors.core.DescriptorPipeline attribute) (coco_pipe.descriptors.extractors.base.BaseDescriptorExtractor attribute) (coco_pipe.descriptors.extractors.complexity.ComplexityDescriptorExtractor attribute) (coco_pipe.descriptors.extractors.parametric.ParametricDescriptorExtractor attribute) (coco_pipe.descriptors.extractors.spectral.BandDescriptorExtractor attribute) config_hash() (in module coco_pipe.decoding.persistence) constant (coco_pipe.decoding.configs.DummyClassifierConfig attribute) (coco_pipe.decoding.configs.DummyRegressorConfig attribute) ContainerElement (class in coco_pipe.report.elements) contexts (coco_pipe.report.decoding_comparison.ResultCollection attribute) continuity() (in module coco_pipe.dim_reduction.evaluation.metrics) coords (coco_pipe.io.config.EmbeddingConfig attribute) (coco_pipe.io.DataContainer attribute) coords_in (coco_pipe.io.dataset.EmbeddingDataset attribute) copy() (coco_pipe.decoding.ExperimentConfig method) copy_X (coco_pipe.decoding.configs.ARDRegressionConfig attribute) (coco_pipe.decoding.configs.BayesianRidgeConfig attribute) (coco_pipe.decoding.configs.ElasticNetConfig attribute) (coco_pipe.decoding.configs.LassoConfig attribute) (coco_pipe.decoding.configs.LinearMixin attribute) (coco_pipe.decoding.configs.RegularizedLinearMixin attribute) (coco_pipe.decoding.configs.RidgeConfig attribute) copyable (coco_pipe.report.elements.CodeBlockElement attribute) correct_sweep_pvalues() (in module coco_pipe.decoding.stats) correlate_features() (in module coco_pipe.dim_reduction.analysis) criterion (coco_pipe.decoding.configs.DecisionTreeRegressorConfig attribute) (coco_pipe.decoding.configs.GradientBoostingMixin attribute) (coco_pipe.decoding.configs.RandomForestClassifierConfig attribute) (coco_pipe.decoding.configs.RandomForestRegressorConfig attribute) custom_aggregation (coco_pipe.decoding.configs.StatisticalAssessmentConfig attribute) custom_unit_column (coco_pipe.decoding.configs.StatisticalAssessmentConfig attribute) cv (coco_pipe.decoding.configs.CalibrationConfig attribute) (coco_pipe.decoding.configs.FeatureSelectionConfig attribute) (coco_pipe.decoding.configs.TuningConfig attribute) (coco_pipe.decoding.ExperimentConfig attribute) CVConfig (class in coco_pipe.decoding.configs)

D

DaskPCAConfig (class in coco_pipe.dim_reduction.config) DaskPCAReducer (class in coco_pipe.dim_reduction.reducers.linear) DaskTruncatedSVDConfig (class in coco_pipe.dim_reduction.config) DaskTruncatedSVDReducer (class in coco_pipe.dim_reduction.reducers.linear) data (coco_pipe.report.elements.DownloadAssetElement attribute) (coco_pipe.report.elements.InteractiveTableElement attribute) (coco_pipe.report.elements.TableElement attribute) DataContainer (class in coco_pipe.io) dataset (coco_pipe.io.config.DatasetConfig attribute) DatasetConfig (class in coco_pipe.io.config) datatype (coco_pipe.io.config.BIDSConfig attribute) (coco_pipe.io.dataset.BIDSDataset attribute) decay (coco_pipe.dim_reduction.config.PHATEConfig attribute) (coco_pipe.dim_reduction.reducers.neighbor.PHATEReducer attribute) decision_function_shape (coco_pipe.decoding.configs.SVCConfig attribute) DecisionTreeRegressorConfig (class in coco_pipe.decoding.configs) DecoderEstimator (class in coco_pipe.decoding.interfaces) DECODING_PRESETS (in module coco_pipe.report.decoding) DECODING_SECTION_BUILDERS (in module coco_pipe.report.decoding) DEFAULT_CHANNELS (in module coco_pipe.decoding.foundation_models.validation) DEFAULT_EVAL_GROUP_COL (in module coco_pipe.dim_reduction.config) DEFAULT_REDUCTION_SECTIONS (in module coco_pipe.report.dim_reduction) DEFAULT_SECTIONS (in module coco_pipe.report.decoding) default_sort (coco_pipe.report.elements.InteractiveTableElement attribute) degree (coco_pipe.decoding.configs.SupportVectorMixin attribute) delta (coco_pipe.report.elements.StatCardElement attribute) description (coco_pipe.report.config.ReportConfig attribute) descriptor_identity() (in module coco_pipe.descriptors.qc) descriptor_subfamily() (in module coco_pipe.descriptors.qc) DescriptorConfig (class in coco_pipe.descriptors.configs) DescriptorFamiliesConfig (class in coco_pipe.descriptors.configs) DescriptorInputConfig (class in coco_pipe.descriptors.configs) DescriptorPipeline (class in coco_pipe.descriptors.core) DescriptorRuntimeConfig (class in coco_pipe.descriptors.configs)

details (coco_pipe.decoding.foundation_models.extraction.CapabilityResult attribute) detect_runs() (in module coco_pipe.io.utils) detect_sessions() (in module coco_pipe.io.utils) detect_subjects() (in module coco_pipe.io.utils) device (coco_pipe.decoding.configs.DeviceConfig attribute) (coco_pipe.decoding.configs.LPFTConfig attribute) (coco_pipe.decoding.configs.NeuralFineTuneConfig attribute) (coco_pipe.decoding.configs.SkorchClassifierConfig attribute) (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier attribute) (coco_pipe.decoding.foundation_models.estimators.FrozenBackboneTransformer attribute) (coco_pipe.decoding.foundation_models.extraction.FoundationEmbeddingExtractor attribute) (coco_pipe.dim_reduction.config.TopologicalAEConfig attribute) (coco_pipe.dim_reduction.reducers.topology.TopologicalAEReducer attribute) DeviceConfig (class in coco_pipe.decoding.configs) DimReduction (class in coco_pipe.dim_reduction) dims (coco_pipe.io.config.EmbeddingConfig attribute) (coco_pipe.io.DataContainer attribute) (coco_pipe.io.dataset.EmbeddingDataset attribute) direction (coco_pipe.decoding.configs.FeatureSelectionConfig attribute) discover_embedding_derivatives() (in module coco_pipe.io.embeddings) dissimilarity (coco_pipe.dim_reduction.config.MDSConfig attribute) DIVERGING (in module coco_pipe.viz.theme) DMDConfig (class in coco_pipe.dim_reduction.config) DMDReducer (class in coco_pipe.dim_reduction.reducers.spatiotemporal) do_clean (coco_pipe.io.dataset.TabularDataset attribute) DownloadAssetElement (class in coco_pipe.report.elements) drop_epoch_outliers() (in module coco_pipe.io.quality) drop_short_epochs (coco_pipe.io.config.BIDSConfig attribute) (coco_pipe.io.dataset.BIDSDataset attribute) drop_subject_outliers() (in module coco_pipe.io.quality) dropout (coco_pipe.decoding.configs.LoRAConfig attribute) dual (coco_pipe.decoding.configs.LinearSVCConfig attribute) (coco_pipe.decoding.configs.LogisticRegressionConfig attribute) DummyClassifierConfig (class in coco_pipe.decoding.configs) DummyRegressorConfig (class in coco_pipe.decoding.configs)

E

early_exaggeration (coco_pipe.dim_reduction.config.TSNEConfig attribute) early_stopping (coco_pipe.decoding.configs.HistGradientBoostingClassifierConfig attribute) (coco_pipe.decoding.configs.HistGradientBoostingRegressorConfig attribute) (coco_pipe.decoding.configs.MLPMixin attribute) (coco_pipe.decoding.configs.SGDMixin attribute) early_stopping_patience (coco_pipe.decoding.configs.TrainerConfig attribute) eigs_ (coco_pipe.dim_reduction.reducers.spatiotemporal.DMDReducer property) ElasticNetConfig (class in coco_pipe.decoding.configs) Element (class in coco_pipe.report.elements) embedding_ (coco_pipe.dim_reduction.reducers.neighbor.PacmapReducer attribute) (coco_pipe.dim_reduction.reducers.neighbor.TrimapReducer attribute) (coco_pipe.dim_reduction.reducers.neighbor.TSNEReducer attribute) embedding_sidecar_path() (in module coco_pipe.io.embeddings) EmbeddingConfig (class in coco_pipe.io.config) EmbeddingDataset (class in coco_pipe.io.dataset) EmbeddingExtractor (class in coco_pipe.decoding.interfaces) EmbeddingQualityResult (class in coco_pipe.dim_reduction.evaluation.result) enabled (coco_pipe.decoding.configs.CalibrationConfig attribute) (coco_pipe.decoding.configs.FeatureSelectionConfig attribute) (coco_pipe.decoding.configs.QuantizationConfig attribute) (coco_pipe.decoding.configs.ReducerConfig attribute) (coco_pipe.decoding.configs.StatisticalAssessmentConfig attribute) (coco_pipe.decoding.configs.TuningConfig attribute) (coco_pipe.descriptors.configs.BandDescriptorConfig attribute) (coco_pipe.descriptors.configs.ComplexityDescriptorConfig attribute) (coco_pipe.descriptors.configs.ParametricDescriptorConfig attribute) epoch_drop_threshold (coco_pipe.io.quality.QCResult attribute) epoch_outlier_fraction_threshold (coco_pipe.io.quality.QCResult attribute) EpochDropRecord (class in coco_pipe.io.quality) epochs (coco_pipe.dim_reduction.config.TopologicalAEConfig attribute) (coco_pipe.dim_reduction.reducers.topology.TopologicalAEReducer attribute) epochs_dropped (coco_pipe.io.quality.QCResult attribute) epsilon (coco_pipe.decoding.configs.MLPMixin attribute) (coco_pipe.decoding.configs.SGDMixin attribute) (coco_pipe.decoding.configs.SVRConfig attribute)

estimator (coco_pipe.decoding.configs.ClassicalModelConfig attribute) estimator_ (coco_pipe.io.transform.SklearnWrapper attribute) EstimatorConfigType (in module coco_pipe.decoding.configs) EstimatorNotFoundError eta0 (coco_pipe.decoding.configs.SGDMixin attribute) evaluate_embedding() (in module coco_pipe.dim_reduction.evaluation.core) EvaluationConfig (class in coco_pipe.dim_reduction.config) event_id (coco_pipe.io.config.BIDSConfig attribute) (coco_pipe.io.dataset.BIDSDataset attribute) events (coco_pipe.report.elements.TimelineElement attribute) exact (coco_pipe.dim_reduction.config.DMDConfig attribute) execution_backend (coco_pipe.descriptors.configs.DescriptorRuntimeConfig attribute) Experiment (class in coco_pipe.decoding) (class in coco_pipe.decoding.experiment) ExperimentConfig (class in coco_pipe.decoding) ExperimentResult (class in coco_pipe.decoding) explained_variance_ratio_ (coco_pipe.dim_reduction.reducers.linear.DaskPCAReducer property) (coco_pipe.dim_reduction.reducers.linear.DaskTruncatedSVDReducer property) (coco_pipe.dim_reduction.reducers.linear.IncrementalPCAReducer property) (coco_pipe.dim_reduction.reducers.linear.PCAReducer property) export() (coco_pipe.decoding.ExperimentResult method) extract() (coco_pipe.decoding.foundation_models.extraction.FoundationEmbeddingExtractor method) (coco_pipe.descriptors.core.DescriptorPipeline method) (coco_pipe.descriptors.extractors.base.BaseDescriptorExtractor method) (coco_pipe.descriptors.extractors.complexity.ComplexityDescriptorExtractor method) (coco_pipe.descriptors.extractors.parametric.ParametricDescriptorExtractor method) (coco_pipe.descriptors.extractors.spectral.BandDescriptorExtractor method) extract_psd() (coco_pipe.descriptors.extractors.base.BasePSDDescriptorExtractor method) (coco_pipe.descriptors.extractors.parametric.ParametricDescriptorExtractor method) (coco_pipe.descriptors.extractors.spectral.BandDescriptorExtractor method) extractors (coco_pipe.descriptors.core.DescriptorPipeline attribute) ExtraTreesRegressorConfig (class in coco_pipe.decoding.configs)

F

families (coco_pipe.descriptors.configs.DescriptorConfig attribute) family_name (coco_pipe.descriptors.extractors.base.BaseDescriptorExtractor attribute) (coco_pipe.descriptors.extractors.complexity.ComplexityDescriptorExtractor attribute) (coco_pipe.descriptors.extractors.parametric.ParametricDescriptorExtractor attribute) (coco_pipe.descriptors.extractors.spectral.BandDescriptorExtractor attribute) family_order (coco_pipe.descriptors.core.DescriptorPipeline attribute) family_qc (coco_pipe.io.quality.QCResult attribute) feature_columns_dropped (coco_pipe.io.quality.QCResult attribute) feature_missingness (coco_pipe.io.quality.QCResult attribute) feature_schema() (coco_pipe.io.DataContainer method) feature_selection (coco_pipe.decoding.ExperimentConfig attribute) FeatureSelectionConfig (class in coco_pipe.decoding.configs) figure (coco_pipe.report.elements.PlotlyElement attribute) figure_size() (in module coco_pipe.viz.theme) filename (coco_pipe.report.elements.DownloadAssetElement attribute) filter() (coco_pipe.dim_reduction.evaluation.result.TrajectoryResult method) (coco_pipe.report.decoding_comparison.ResultCollection method) filterbank (coco_pipe.dim_reduction.config.TRCAConfig attribute) (coco_pipe.dim_reduction.reducers.spatiotemporal.TRCAReducer attribute) fingerprint_container() (in module coco_pipe.io.provenance) fit() (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier method) (coco_pipe.decoding.foundation_models.estimators.FrozenBackboneTransformer method) (coco_pipe.decoding.interfaces.DecoderEstimator method) (coco_pipe.decoding.scalers.SubjectStandardScaler method) (coco_pipe.dim_reduction.BaseReducer method) (coco_pipe.dim_reduction.DimReduction method) (coco_pipe.dim_reduction.reducers.linear.DaskPCAReducer method) (coco_pipe.dim_reduction.reducers.linear.DaskTruncatedSVDReducer method) (coco_pipe.dim_reduction.reducers.linear.IncrementalPCAReducer method) (coco_pipe.dim_reduction.reducers.linear.PCAReducer method) (coco_pipe.dim_reduction.reducers.manifold.IsomapReducer method) (coco_pipe.dim_reduction.reducers.manifold.LLEReducer method) (coco_pipe.dim_reduction.reducers.manifold.MDSReducer method) (coco_pipe.dim_reduction.reducers.manifold.SpectralEmbeddingReducer method) (coco_pipe.dim_reduction.reducers.neighbor.PacmapReducer method) (coco_pipe.dim_reduction.reducers.neighbor.ParametricUMAPReducer method) (coco_pipe.dim_reduction.reducers.neighbor.PHATEReducer method) (coco_pipe.dim_reduction.reducers.neighbor.TrimapReducer method) (coco_pipe.dim_reduction.reducers.neighbor.TSNEReducer method) (coco_pipe.dim_reduction.reducers.neighbor.UMAPReducer method) (coco_pipe.dim_reduction.reducers.neural.IVISReducer method) (coco_pipe.dim_reduction.reducers.spatiotemporal.DMDReducer method) (coco_pipe.dim_reduction.reducers.spatiotemporal.TRCAReducer method) (coco_pipe.dim_reduction.reducers.topology.TopologicalAEReducer method) (coco_pipe.io.transform.SklearnWrapper method) (coco_pipe.io.transform.SpatialWhitener method) fit_config (coco_pipe.descriptors.extractors.spectral.BandDescriptorExtractor attribute) fit_intercept (coco_pipe.decoding.configs.ARDRegressionConfig attribute) (coco_pipe.decoding.configs.BayesianRidgeConfig attribute) (coco_pipe.decoding.configs.ElasticNetConfig attribute) (coco_pipe.decoding.configs.LassoConfig attribute) (coco_pipe.decoding.configs.LinearMixin attribute) (coco_pipe.decoding.configs.LinearSVCConfig attribute) (coco_pipe.decoding.configs.LogisticRegressionConfig attribute) (coco_pipe.decoding.configs.RegularizedLinearMixin attribute) (coco_pipe.decoding.configs.RidgeConfig attribute) (coco_pipe.decoding.configs.SGDMixin attribute)

fit_transform() (coco_pipe.decoding.scalers.SubjectStandardScaler method) (coco_pipe.dim_reduction.BaseReducer method) (coco_pipe.dim_reduction.DimReduction method) (coco_pipe.dim_reduction.reducers.manifold.MDSReducer method) (coco_pipe.dim_reduction.reducers.manifold.SpectralEmbeddingReducer method) (coco_pipe.dim_reduction.reducers.neighbor.PacmapReducer method) (coco_pipe.dim_reduction.reducers.neighbor.TrimapReducer method) (coco_pipe.dim_reduction.reducers.neighbor.TSNEReducer method) (coco_pipe.io.transform.SklearnWrapper method) (coco_pipe.io.transform.SpatialWhitener method) flatten() (coco_pipe.io.DataContainer method) flip_pc_scores_for_consistency() (in module coco_pipe.dim_reduction.preprocessing) fmax (coco_pipe.descriptors.configs.BandDescriptorConfig attribute) fmin (coco_pipe.descriptors.configs.BandDescriptorConfig attribute) force_transpose (coco_pipe.dim_reduction.config.DMDConfig attribute) (coco_pipe.dim_reduction.reducers.spatiotemporal.DMDReducer attribute) forward() (coco_pipe.dim_reduction.reducers.topology.TopologicalSignatureDistance method) FoundationClassifier (class in coco_pipe.decoding.foundation_models.estimators) FoundationEmbeddingExtractor (class in coco_pipe.decoding.foundation_models.extraction) FoundationEmbeddingModelConfig (class in coco_pipe.decoding.configs) FoundationEmbeddingResult (class in coco_pipe.decoding.foundation_models.extraction) FP_ratio (coco_pipe.dim_reduction.config.PacmapConfig attribute) (coco_pipe.dim_reduction.reducers.neighbor.PacmapReducer attribute) freq_range (coco_pipe.descriptors.configs.ParametricDescriptorConfig attribute) from_bids() (in module coco_pipe.report.api) from_container() (in module coco_pipe.report) (in module coco_pipe.report.api) from_embeddings() (in module coco_pipe.report.api) from_env() (coco_pipe.report.config.ProvenanceConfig class method) from_experiment_result() (in module coco_pipe.report) (in module coco_pipe.report.api) from_experiment_results() (in module coco_pipe.report.api) from_flag_dict() (coco_pipe.io.quality.CheckResult class method) from_frame() (coco_pipe.dim_reduction.evaluation.core.MethodSelector class method) (coco_pipe.dim_reduction.evaluation.MethodSelector class method) from_orm() (coco_pipe.decoding.ExperimentConfig class method) from_records() (coco_pipe.dim_reduction.evaluation.core.MethodSelector class method) (coco_pipe.dim_reduction.evaluation.MethodSelector class method) from_reductions() (in module coco_pipe.report) (in module coco_pipe.report.api) from_tabular() (in module coco_pipe.report.api) FrozenBackboneDecoderConfig (class in coco_pipe.decoding.configs) FrozenBackboneTransformer (class in coco_pipe.decoding.foundation_models.estimators) ft_epochs (coco_pipe.decoding.configs.LPFTConfig attribute) ft_lr (coco_pipe.decoding.configs.LPFTConfig attribute)

G

gamma (coco_pipe.decoding.configs.SupportVectorMixin attribute) (coco_pipe.dim_reduction.config.SpectralEmbeddingConfig attribute) GaussianNBConfig (class in coco_pipe.decoding.configs) GeneralizingEstimatorConfig (class in coco_pipe.decoding.configs) generate_descriptor_dataset_report() (in module coco_pipe.report.descriptor_qc) generate_descriptor_subject_report() (in module coco_pipe.report.descriptor_qc) get_all_evaluation_metrics() (coco_pipe.decoding.ExperimentConfig method) get_artifact_metadata() (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier method) (coco_pipe.decoding.interfaces.NeuralTrainable method) get_best_params() (coco_pipe.decoding.ExperimentResult method) get_bootstrap_confidence_intervals() (coco_pipe.decoding.ExperimentResult method) get_calibration_curve() (coco_pipe.decoding.ExperimentResult method) get_capabilities() (in module coco_pipe.decoding) (in module coco_pipe.decoding.registry) get_checkpoint_manifest() (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier method) (coco_pipe.decoding.interfaces.NeuralTrainable method) get_components() (coco_pipe.dim_reduction.BaseReducer method) (coco_pipe.dim_reduction.DimReduction method) (coco_pipe.dim_reduction.reducers.linear.DaskPCAReducer method) (coco_pipe.dim_reduction.reducers.linear.DaskTruncatedSVDReducer method) (coco_pipe.dim_reduction.reducers.linear.IncrementalPCAReducer method) (coco_pipe.dim_reduction.reducers.linear.PCAReducer method) (coco_pipe.dim_reduction.reducers.spatiotemporal.DMDReducer method) (coco_pipe.dim_reduction.reducers.spatiotemporal.TRCAReducer method) get_confusion_counts() (coco_pipe.decoding.ExperimentResult method) get_confusion_matrices() (coco_pipe.decoding.ExperimentResult method) get_continuity() (coco_pipe.dim_reduction.evaluation.result.EmbeddingQualityResult method) get_detailed_scores() (coco_pipe.decoding.ExperimentResult method) get_diagnostics() (coco_pipe.dim_reduction.BaseReducer method) (coco_pipe.dim_reduction.DimReduction method) get_embedding_info() (coco_pipe.decoding.interfaces.EmbeddingExtractor method) get_environment_info() (in module coco_pipe.utils) get_estimator_cls() (in module coco_pipe.decoding.registry) get_estimator_spec() (in module coco_pipe.decoding.registry) get_failure_diagnostics() (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier method) (coco_pipe.decoding.interfaces.NeuralTrainable method) get_feature_importances() (coco_pipe.decoding.ExperimentResult method) get_feature_scores() (coco_pipe.decoding.ExperimentResult method) get_feature_stability() (coco_pipe.decoding.ExperimentResult method) get_fit_diagnostics() (coco_pipe.decoding.ExperimentResult method) get_foundation_model_spec() (in module coco_pipe.decoding.registry) get_generalization_matrix() (coco_pipe.decoding.ExperimentResult method) get_git_revision_hash() (in module coco_pipe.utils) get_kinematic_timecourses() (coco_pipe.dim_reduction.evaluation.result.TrajectoryResult method) get_lcmc() (coco_pipe.dim_reduction.evaluation.result.EmbeddingQualityResult method)

get_metrics() (coco_pipe.dim_reduction.DimReduction method) get_model_artifacts() (coco_pipe.decoding.ExperimentResult method) get_model_card_info() (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier method) (coco_pipe.decoding.interfaces.NeuralTrainable method) get_mrre() (coco_pipe.dim_reduction.evaluation.result.EmbeddingQualityResult method) get_package_version() (in module coco_pipe.utils) get_params() (coco_pipe.decoding.interfaces.DecoderEstimator method) get_per_condition_scalars() (coco_pipe.dim_reduction.evaluation.result.TrajectoryResult method) get_per_trial_scalars() (coco_pipe.dim_reduction.evaluation.result.TrajectoryResult method) get_pooled_confusion_matrix() (coco_pipe.decoding.ExperimentResult method) get_pr_auc_summary() (coco_pipe.decoding.ExperimentResult method) get_pr_curve() (coco_pipe.decoding.ExperimentResult method) get_predictions() (coco_pipe.decoding.ExperimentResult method) get_probability_diagnostics() (coco_pipe.decoding.ExperimentResult method) get_pytorch_module() (coco_pipe.dim_reduction.reducers.topology.TopologicalAEReducer method) get_quality_metadata() (coco_pipe.dim_reduction.BaseReducer method) (coco_pipe.dim_reduction.DimReduction method) get_reducer_class() (in module coco_pipe.dim_reduction.config) get_roc_auc_summary() (coco_pipe.decoding.ExperimentResult method) get_roc_curve() (coco_pipe.decoding.ExperimentResult method) get_search_results() (coco_pipe.decoding.ExperimentResult method) get_selected_features() (coco_pipe.decoding.ExperimentResult method) get_selector_capabilities() (in module coco_pipe.decoding.registry) get_separation_pair_scalars() (coco_pipe.dim_reduction.evaluation.result.TrajectoryResult method) get_separation_timecourses() (coco_pipe.dim_reduction.evaluation.result.TrajectoryResult method) get_shepard_diagram_data() (coco_pipe.dim_reduction.evaluation.result.EmbeddingQualityResult method) get_splits() (coco_pipe.decoding.ExperimentResult method) get_statistical_assessment() (coco_pipe.decoding.ExperimentResult method) get_statistical_nulls() (coco_pipe.decoding.ExperimentResult method) get_summary() (coco_pipe.dim_reduction.DimReduction method) get_temporal_score_summary() (coco_pipe.decoding.ExperimentResult method) get_training_history() (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier method) (coco_pipe.decoding.interfaces.NeuralTrainable method) get_trustworthiness() (coco_pipe.dim_reduction.evaluation.result.EmbeddingQualityResult method) get_velocity_fields() (coco_pipe.dim_reduction.evaluation.result.VelocityResult method) git_hash (coco_pipe.report.config.ProvenanceConfig attribute) global_scaler (coco_pipe.decoding.scalers.SubjectStandardScaler attribute) gradient_importance() (in module coco_pipe.dim_reduction.analysis) GradientBoostingClassifierConfig (class in coco_pipe.decoding.configs) GradientBoostingMixin (class in coco_pipe.decoding.configs) GradientBoostingRegressorConfig (class in coco_pipe.decoding.configs) grids (coco_pipe.decoding.ExperimentConfig attribute) group_key (coco_pipe.decoding.configs.CVConfig attribute) group_labels() (in module coco_pipe.io.quality) grouped_condition_stats() (in module coco_pipe.dim_reduction.evaluation.stats) groups (coco_pipe.dim_reduction.evaluation.result.VelocityResult attribute)

H

head (coco_pipe.decoding.configs.FrozenBackboneDecoderConfig attribute) header (coco_pipe.io.config.TabularConfig attribute) (coco_pipe.io.dataset.TabularDataset attribute) height (coco_pipe.report.elements.PlotlyElement attribute) hidden_dims (coco_pipe.dim_reduction.config.TopologicalAEConfig attribute) (coco_pipe.dim_reduction.reducers.topology.TopologicalAEReducer attribute)

hidden_layer_sizes (coco_pipe.decoding.configs.MLPMixin attribute) higher_is_better (coco_pipe.report.elements.MetricsTableElement attribute) highlight_cols (coco_pipe.report.elements.MetricsTableElement attribute) HistGradientBoostingClassifierConfig (class in coco_pipe.decoding.configs) HistGradientBoostingRegressorConfig (class in coco_pipe.decoding.configs) html (coco_pipe.report.elements.HtmlElement attribute) HtmlElement (class in coco_pipe.report.elements)

I

id_fn (coco_pipe.io.dataset.EmbeddingDataset attribute) ids (coco_pipe.io.DataContainer attribute) ImageElement (class in coco_pipe.report.elements) import_optional_dependency() (in module coco_pipe.utils) IncrementalPCAConfig (class in coco_pipe.dim_reduction.config) IncrementalPCAReducer (class in coco_pipe.dim_reduction.reducers.linear) index_col (coco_pipe.io.config.TabularConfig attribute) (coco_pipe.io.dataset.TabularDataset attribute) init (coco_pipe.decoding.configs.GradientBoostingMixin attribute) (coco_pipe.dim_reduction.config.PacmapConfig attribute) (coco_pipe.dim_reduction.config.TSNEConfig attribute) (coco_pipe.dim_reduction.reducers.neighbor.PacmapReducer attribute) input (coco_pipe.descriptors.configs.DescriptorConfig attribute) input_dim_ (coco_pipe.dim_reduction.reducers.topology.TopologicalAEReducer attribute) input_kind (coco_pipe.decoding.configs.ClassicalModelConfig attribute) (coco_pipe.decoding.configs.NeuralFineTuneConfig attribute) interaction_cst (coco_pipe.decoding.configs.HistGradientBoostingClassifierConfig attribute) (coco_pipe.decoding.configs.HistGradientBoostingRegressorConfig attribute)

InteractiveTableElement (class in coco_pipe.report.elements) intercept_scaling (coco_pipe.decoding.configs.LinearSVCConfig attribute) (coco_pipe.decoding.configs.LogisticRegressionConfig attribute) interpret() (coco_pipe.dim_reduction.DimReduction method) interpret_features() (in module coco_pipe.dim_reduction) (in module coco_pipe.dim_reduction.analysis) inverse_transform() (coco_pipe.io.transform.SklearnWrapper method) (coco_pipe.io.transform.SpatialWhitener method) inverse_whitener_ (coco_pipe.io.transform.SpatialWhitener attribute) is_issue (coco_pipe.io.quality.CheckResult property) isel() (coco_pipe.io.DataContainer method) IsomapConfig (class in coco_pipe.dim_reduction.config) IsomapReducer (class in coco_pipe.dim_reduction.reducers.manifold) iter_analysis_units() (in module coco_pipe.io.units) IVISConfig (class in coco_pipe.dim_reduction.config) IVISReducer (class in coco_pipe.dim_reduction.reducers.neural)

K

k (coco_pipe.dim_reduction.config.IVISConfig attribute) k_range (coco_pipe.dim_reduction.config.EvaluationConfig attribute) kernel (coco_pipe.decoding.configs.SupportVectorMixin attribute) kind (coco_pipe.decoding.configs.ClassicalEstimatorConfig attribute) (coco_pipe.decoding.configs.FoundationEmbeddingModelConfig attribute) (coco_pipe.decoding.configs.FrozenBackboneDecoderConfig attribute) (coco_pipe.decoding.configs.NeuralFineTuneConfig attribute) (coco_pipe.decoding.configs.TemporalDecoderConfig attribute) (coco_pipe.report.elements.CalloutElement attribute)

KNeighborsClassifierConfig (class in coco_pipe.decoding.configs) KNeighborsRegressorConfig (class in coco_pipe.decoding.configs) knn (coco_pipe.dim_reduction.config.PHATEConfig attribute) (coco_pipe.dim_reduction.reducers.neighbor.PHATEReducer attribute)

L

l1_ratio (coco_pipe.decoding.configs.ElasticNetConfig attribute) (coco_pipe.decoding.configs.LogisticRegressionConfig attribute) (coco_pipe.decoding.configs.SGDMixin attribute) l2_regularization (coco_pipe.decoding.configs.HistGradientBoostingClassifierConfig attribute) (coco_pipe.decoding.configs.HistGradientBoostingRegressorConfig attribute) label (coco_pipe.report.elements.DownloadAssetElement attribute) (coco_pipe.report.elements.ProgressBarElement attribute) (coco_pipe.report.elements.StatCardElement attribute) lam (coco_pipe.dim_reduction.config.TopologicalAEConfig attribute) (coco_pipe.dim_reduction.reducers.topology.TopologicalAEReducer attribute) lambda_1 (coco_pipe.decoding.configs.ARDRegressionConfig attribute) (coco_pipe.decoding.configs.BayesianRidgeConfig attribute) lambda_2 (coco_pipe.decoding.configs.ARDRegressionConfig attribute) (coco_pipe.decoding.configs.BayesianRidgeConfig attribute) lambda_init (coco_pipe.decoding.configs.BayesianRidgeConfig attribute) language (coco_pipe.report.elements.CodeBlockElement attribute) LassoConfig (class in coco_pipe.decoding.configs) lcmc() (in module coco_pipe.dim_reduction.evaluation.metrics) LDAConfig (class in coco_pipe.decoding.configs) leaf_size (coco_pipe.decoding.configs.KNeighborsClassifierConfig attribute) (coco_pipe.decoding.configs.KNeighborsRegressorConfig attribute) learning_rate (coco_pipe.decoding.configs.AdaBoostClassifierConfig attribute) (coco_pipe.decoding.configs.AdaBoostRegressorConfig attribute) (coco_pipe.decoding.configs.GradientBoostingMixin attribute) (coco_pipe.decoding.configs.HistGradientBoostingClassifierConfig attribute) (coco_pipe.decoding.configs.HistGradientBoostingRegressorConfig attribute) (coco_pipe.decoding.configs.MLPMixin attribute) (coco_pipe.decoding.configs.SGDMixin attribute) (coco_pipe.dim_reduction.config.TSNEConfig attribute) learning_rate_init (coco_pipe.decoding.configs.MLPMixin attribute) LinearMixin (class in coco_pipe.decoding.configs) LinearRegressionConfig (class in coco_pipe.decoding.configs) LinearSVCConfig (class in coco_pipe.decoding.configs) list_capabilities() (in module coco_pipe.decoding) (in module coco_pipe.decoding.registry) list_estimator_specs() (in module coco_pipe.decoding.registry) list_foundation_models() (in module coco_pipe.decoding.registry) lle_method (coco_pipe.dim_reduction.config.LLEConfig attribute) LLEConfig (class in coco_pipe.dim_reduction.config) LLEReducer (class in coco_pipe.dim_reduction.reducers.manifold) load() (coco_pipe.decoding.ExperimentResult class method) (coco_pipe.dim_reduction.BaseReducer class method) (coco_pipe.dim_reduction.DimReduction class method) (coco_pipe.dim_reduction.evaluation.result.EmbeddingQualityResult class method) (coco_pipe.dim_reduction.evaluation.result.TrajectoryResult class method) (coco_pipe.dim_reduction.evaluation.result.VelocityResult class method) (coco_pipe.io.DataContainer class method) (coco_pipe.io.dataset.BaseDataset method) (coco_pipe.io.dataset.BIDSDataset method) (coco_pipe.io.dataset.EmbeddingDataset method) (coco_pipe.io.dataset.TabularDataset method)

load_combined_embedding_table() (in module coco_pipe.io.embeddings) load_completed_result_records() (in module coco_pipe.decoding.persistence) load_data() (in module coco_pipe.io) (in module coco_pipe.io.load) load_descriptor_table() (in module coco_pipe.descriptors.io) load_embedding_derivatives() (in module coco_pipe.io.embeddings) load_fit_artifact() (in module coco_pipe.dim_reduction.artifacts) load_fit_runs() (in module coco_pipe.dim_reduction.artifacts) load_in_4bit (coco_pipe.decoding.configs.QuantizationConfig attribute) load_participants_tsv() (in module coco_pipe.io.utils) loading_mode (coco_pipe.io.config.BIDSConfig attribute) logger (in module coco_pipe.decoding.experiment) (in module coco_pipe.decoding.result) (in module coco_pipe.decoding.stats) (in module coco_pipe.io.dataset) (in module coco_pipe.io.structures) (in module coco_pipe.io.transform) (in module coco_pipe.io.utils) LogisticRegressionConfig (class in coco_pipe.decoding.configs) lora (coco_pipe.decoding.configs.NeuralFineTuneConfig attribute) (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier attribute) LoRAConfig (class in coco_pipe.decoding.configs) loss (coco_pipe.decoding.configs.AdaBoostRegressorConfig attribute) (coco_pipe.decoding.configs.GradientBoostingClassifierConfig attribute) (coco_pipe.decoding.configs.GradientBoostingRegressorConfig attribute) (coco_pipe.decoding.configs.HistGradientBoostingRegressorConfig attribute) (coco_pipe.decoding.configs.LinearSVCConfig attribute) (coco_pipe.decoding.configs.SGDMixin attribute) (coco_pipe.decoding.configs.SGDRegressorConfig attribute) loss_history_ (coco_pipe.dim_reduction.reducers.neighbor.ParametricUMAPReducer property) (coco_pipe.dim_reduction.reducers.topology.TopologicalAEReducer property) lp_epochs (coco_pipe.decoding.configs.LPFTConfig attribute) lp_lr (coco_pipe.decoding.configs.LPFTConfig attribute) LPFTConfig (class in coco_pipe.decoding.configs) lr (coco_pipe.decoding.configs.SkorchClassifierConfig attribute) (coco_pipe.dim_reduction.config.TopologicalAEConfig attribute) (coco_pipe.dim_reduction.reducers.topology.TopologicalAEReducer attribute)

M

mad_failures_from_qc() (in module coco_pipe.descriptors.tables) mad_z_max (coco_pipe.io.quality.EpochDropRecord attribute) main() (in module coco_pipe.decoding.foundation_models.validation) make_decoding_report() (in module coco_pipe.report.decoding) make_experiment_results_report() (in module coco_pipe.report.decoding_comparison) make_failure_record() (in module coco_pipe.descriptors.extractors.base) make_foundation_decoding_report() (in module coco_pipe.report.foundation) make_foundation_embedding_report() (in module coco_pipe.report.foundation) make_qc_flag() (in module coco_pipe.io.quality) make_reduction_report() (in module coco_pipe.report.dim_reduction) make_serializable() (in module coco_pipe.decoding.result) make_strata() (in module coco_pipe.io.utils) MarkdownElement (class in coco_pipe.report.elements) match_edges (coco_pipe.dim_reduction.reducers.topology.TopologicalSignatureDistance attribute) max_bins (coco_pipe.decoding.configs.HistGradientBoostingClassifierConfig attribute) (coco_pipe.decoding.configs.HistGradientBoostingRegressorConfig attribute) max_depth (coco_pipe.decoding.configs.DecisionTreeRegressorConfig attribute) (coco_pipe.decoding.configs.GradientBoostingMixin attribute) (coco_pipe.decoding.configs.HistGradientBoostingClassifierConfig attribute) (coco_pipe.decoding.configs.HistGradientBoostingRegressorConfig attribute) (coco_pipe.decoding.configs.TreeMixin attribute) max_epochs (coco_pipe.decoding.configs.SkorchClassifierConfig attribute) (coco_pipe.decoding.configs.TrainerConfig attribute) max_features (coco_pipe.decoding.configs.DecisionTreeRegressorConfig attribute) (coco_pipe.decoding.configs.GradientBoostingMixin attribute) (coco_pipe.decoding.configs.TreeMixin attribute) max_fun (coco_pipe.decoding.configs.MLPMixin attribute) max_iter (coco_pipe.decoding.configs.ARDRegressionConfig attribute) (coco_pipe.decoding.configs.BayesianRidgeConfig attribute) (coco_pipe.decoding.configs.HistGradientBoostingClassifierConfig attribute) (coco_pipe.decoding.configs.HistGradientBoostingRegressorConfig attribute) (coco_pipe.decoding.configs.LinearSVCConfig attribute) (coco_pipe.decoding.configs.LogisticRegressionConfig attribute) (coco_pipe.decoding.configs.MLPMixin attribute) (coco_pipe.decoding.configs.RegularizedLinearMixin attribute) (coco_pipe.decoding.configs.SGDMixin attribute) (coco_pipe.decoding.configs.SupportVectorMixin attribute) (coco_pipe.dim_reduction.config.MDSConfig attribute) (coco_pipe.dim_reduction.config.TSNEConfig attribute) max_leaf_nodes (coco_pipe.decoding.configs.DecisionTreeRegressorConfig attribute) (coco_pipe.decoding.configs.GradientBoostingMixin attribute) (coco_pipe.decoding.configs.HistGradientBoostingClassifierConfig attribute) (coco_pipe.decoding.configs.HistGradientBoostingRegressorConfig attribute) (coco_pipe.decoding.configs.TreeMixin attribute) max_length (coco_pipe.decoding.configs.LPFTConfig attribute) max_n_peaks (coco_pipe.descriptors.configs.ParametricDescriptorConfig attribute) max_samples (coco_pipe.decoding.configs.ExtraTreesRegressorConfig attribute) (coco_pipe.decoding.configs.RandomForestClassifierConfig attribute) (coco_pipe.decoding.configs.RandomForestRegressorConfig attribute) max_value (coco_pipe.report.elements.ProgressBarElement attribute) MDSConfig (class in coco_pipe.dim_reduction.config) MDSReducer (class in coco_pipe.dim_reduction.reducers.manifold) mean_ (coco_pipe.io.transform.SpatialWhitener attribute) measure_kwargs (coco_pipe.descriptors.configs.ComplexityDescriptorConfig attribute) measures (coco_pipe.descriptors.configs.ComplexityDescriptorConfig attribute) merge_descriptor_tables() (in module coco_pipe.descriptors.io) merge_reports() (in module coco_pipe.report) (in module coco_pipe.report.api) message (coco_pipe.io.quality.CheckResult attribute) meta (coco_pipe.io.DataContainer attribute) meta_columns (coco_pipe.io.config.TabularConfig attribute) (coco_pipe.io.dataset.TabularDataset attribute) metadata (coco_pipe.decoding.foundation_models.extraction.FoundationEmbeddingResult attribute) method (coco_pipe.decoding.configs.AdaBoostClassifierConfig attribute) (coco_pipe.decoding.configs.AdaBoostRegressorConfig attribute) (coco_pipe.decoding.configs.ARDRegressionConfig attribute) (coco_pipe.decoding.configs.BayesianRidgeConfig attribute) (coco_pipe.decoding.configs.CalibrationConfig attribute) (coco_pipe.decoding.configs.ChanceAssessmentConfig attribute) (coco_pipe.decoding.configs.ClassicalModelConfig attribute) (coco_pipe.decoding.configs.ConfidenceIntervalConfig attribute) (coco_pipe.decoding.configs.DecisionTreeRegressorConfig attribute) (coco_pipe.decoding.configs.DummyClassifierConfig attribute) (coco_pipe.decoding.configs.DummyRegressorConfig attribute) (coco_pipe.decoding.configs.ElasticNetConfig attribute) (coco_pipe.decoding.configs.ExtraTreesRegressorConfig attribute) (coco_pipe.decoding.configs.FeatureSelectionConfig attribute) (coco_pipe.decoding.configs.GaussianNBConfig attribute) (coco_pipe.decoding.configs.GeneralizingEstimatorConfig attribute) (coco_pipe.decoding.configs.GradientBoostingClassifierConfig attribute) (coco_pipe.decoding.configs.GradientBoostingRegressorConfig attribute) (coco_pipe.decoding.configs.HistGradientBoostingClassifierConfig attribute) (coco_pipe.decoding.configs.HistGradientBoostingRegressorConfig attribute) (coco_pipe.decoding.configs.KNeighborsClassifierConfig attribute) (coco_pipe.decoding.configs.KNeighborsRegressorConfig attribute) (coco_pipe.decoding.configs.LassoConfig attribute) (coco_pipe.decoding.configs.LDAConfig attribute) (coco_pipe.decoding.configs.LinearRegressionConfig attribute) (coco_pipe.decoding.configs.LinearSVCConfig attribute) (coco_pipe.decoding.configs.LogisticRegressionConfig attribute) (coco_pipe.decoding.configs.LPFTConfig attribute) (coco_pipe.decoding.configs.MLPClassifierConfig attribute) (coco_pipe.decoding.configs.MLPRegressorConfig attribute) (coco_pipe.decoding.configs.RandomForestClassifierConfig attribute) (coco_pipe.decoding.configs.RandomForestRegressorConfig attribute) (coco_pipe.decoding.configs.ReducerConfig attribute) (coco_pipe.decoding.configs.RidgeConfig attribute) (coco_pipe.decoding.configs.SGDClassifierConfig attribute) (coco_pipe.decoding.configs.SGDRegressorConfig attribute) (coco_pipe.decoding.configs.SkorchClassifierConfig attribute) (coco_pipe.decoding.configs.SlidingEstimatorConfig attribute) (coco_pipe.decoding.configs.SVCConfig attribute) (coco_pipe.decoding.configs.SVRConfig attribute) (coco_pipe.dim_reduction.config.DaskPCAConfig attribute) (coco_pipe.dim_reduction.config.DaskTruncatedSVDConfig attribute) (coco_pipe.dim_reduction.config.DMDConfig attribute) (coco_pipe.dim_reduction.config.IncrementalPCAConfig attribute) (coco_pipe.dim_reduction.config.IsomapConfig attribute) (coco_pipe.dim_reduction.config.IVISConfig attribute) (coco_pipe.dim_reduction.config.LLEConfig attribute) (coco_pipe.dim_reduction.config.MDSConfig attribute) (coco_pipe.dim_reduction.config.PacmapConfig attribute) (coco_pipe.dim_reduction.config.ParametricUMAPConfig attribute) (coco_pipe.dim_reduction.config.PCAConfig attribute) (coco_pipe.dim_reduction.config.PHATEConfig attribute) (coco_pipe.dim_reduction.config.SpectralEmbeddingConfig attribute) (coco_pipe.dim_reduction.config.TopologicalAEConfig attribute) (coco_pipe.dim_reduction.config.TRCAConfig attribute) (coco_pipe.dim_reduction.config.TrimapConfig attribute) (coco_pipe.dim_reduction.config.TSNEConfig attribute) (coco_pipe.dim_reduction.config.UMAPConfig attribute) (coco_pipe.io.transform.SpatialWhitener attribute) METHODS (in module coco_pipe.dim_reduction) (in module coco_pipe.dim_reduction.config) MethodSelector (class in coco_pipe.dim_reduction.evaluation) (class in coco_pipe.dim_reduction.evaluation.core) metric (coco_pipe.decoding.configs.KNeighborsClassifierConfig attribute) (coco_pipe.decoding.configs.KNeighborsRegressorConfig attribute) (coco_pipe.dim_reduction.config.IsomapConfig attribute) (coco_pipe.dim_reduction.config.MDSConfig attribute) (coco_pipe.dim_reduction.config.ParametricUMAPConfig attribute) (coco_pipe.dim_reduction.config.UMAPConfig attribute) (coco_pipe.dim_reduction.reducers.neighbor.ParametricUMAPReducer attribute)

metric_name (coco_pipe.io.quality.CheckResult attribute) metric_params (coco_pipe.decoding.configs.KNeighborsClassifierConfig attribute) (coco_pipe.decoding.configs.KNeighborsRegressorConfig attribute) metric_records_ (coco_pipe.dim_reduction.evaluation.core.MethodSelector attribute) metric_value (coco_pipe.io.quality.CheckResult attribute) metrics (coco_pipe.decoding.configs.StatisticalAssessmentConfig attribute) (coco_pipe.decoding.ExperimentConfig attribute) (coco_pipe.dim_reduction.config.EvaluationConfig attribute) MetricsTableElement (class in coco_pipe.report.elements) mime_type (coco_pipe.report.elements.DownloadAssetElement attribute) min_denominator_power (coco_pipe.descriptors.configs.BandDescriptorConfig attribute) min_dist (coco_pipe.dim_reduction.config.ParametricUMAPConfig attribute) (coco_pipe.dim_reduction.config.UMAPConfig attribute) (coco_pipe.dim_reduction.reducers.neighbor.ParametricUMAPReducer attribute) min_impurity_decrease (coco_pipe.decoding.configs.DecisionTreeRegressorConfig attribute) (coco_pipe.decoding.configs.GradientBoostingMixin attribute) (coco_pipe.decoding.configs.TreeMixin attribute) min_samples_leaf (coco_pipe.decoding.configs.DecisionTreeRegressorConfig attribute) (coco_pipe.decoding.configs.GradientBoostingMixin attribute) (coco_pipe.decoding.configs.HistGradientBoostingClassifierConfig attribute) (coco_pipe.decoding.configs.HistGradientBoostingRegressorConfig attribute) (coco_pipe.decoding.configs.TreeMixin attribute) min_samples_split (coco_pipe.decoding.configs.DecisionTreeRegressorConfig attribute) (coco_pipe.decoding.configs.GradientBoostingMixin attribute) (coco_pipe.decoding.configs.TreeMixin attribute) min_weight_fraction_leaf (coco_pipe.decoding.configs.DecisionTreeRegressorConfig attribute) (coco_pipe.decoding.configs.GradientBoostingMixin attribute) (coco_pipe.decoding.configs.TreeMixin attribute) MISSING_EVAL_VALUES (in module coco_pipe.dim_reduction.config) MLPClassifierConfig (class in coco_pipe.decoding.configs) MLPMixin (class in coco_pipe.decoding.configs) MLPRegressorConfig (class in coco_pipe.decoding.configs) MN_ratio (coco_pipe.dim_reduction.config.PacmapConfig attribute) (coco_pipe.dim_reduction.reducers.neighbor.PacmapReducer attribute) mne (in module coco_pipe.io.utils) mode (coco_pipe.io.config.BIDSConfig attribute) (coco_pipe.io.config.EmbeddingConfig attribute) (coco_pipe.io.config.TabularConfig attribute) (coco_pipe.io.dataset.BIDSDataset attribute) model (coco_pipe.decoding.foundation_models.extraction.FoundationEmbeddingExtractor attribute) (coco_pipe.dim_reduction.config.IVISConfig attribute) ModelConfigType (in module coco_pipe.decoding.configs) models (coco_pipe.decoding.ExperimentConfig attribute) modes_ (coco_pipe.dim_reduction.reducers.spatiotemporal.DMDReducer property) module coco_pipe coco_pipe.decoding coco_pipe.decoding.configs coco_pipe.decoding.experiment coco_pipe.decoding.foundation_models coco_pipe.decoding.foundation_models.estimators coco_pipe.decoding.foundation_models.extraction coco_pipe.decoding.foundation_models.validation coco_pipe.decoding.interfaces coco_pipe.decoding.persistence coco_pipe.decoding.registry coco_pipe.decoding.result coco_pipe.decoding.scalers coco_pipe.decoding.stats coco_pipe.decoding.targets coco_pipe.descriptors coco_pipe.descriptors.configs coco_pipe.descriptors.core coco_pipe.descriptors.extractors coco_pipe.descriptors.extractors.base coco_pipe.descriptors.extractors.complexity coco_pipe.descriptors.extractors.parametric coco_pipe.descriptors.extractors.spectral coco_pipe.descriptors.io coco_pipe.descriptors.naming coco_pipe.descriptors.qc coco_pipe.descriptors.tables coco_pipe.descriptors.validation coco_pipe.dim_reduction coco_pipe.dim_reduction.analysis coco_pipe.dim_reduction.artifacts coco_pipe.dim_reduction.config coco_pipe.dim_reduction.core coco_pipe.dim_reduction.evaluation coco_pipe.dim_reduction.evaluation.core coco_pipe.dim_reduction.evaluation.geometry coco_pipe.dim_reduction.evaluation.metrics coco_pipe.dim_reduction.evaluation.result coco_pipe.dim_reduction.evaluation.stats coco_pipe.dim_reduction.evaluation.velocity coco_pipe.dim_reduction.pipeline coco_pipe.dim_reduction.preprocessing coco_pipe.dim_reduction.reducers coco_pipe.dim_reduction.reducers.base coco_pipe.dim_reduction.reducers.linear coco_pipe.dim_reduction.reducers.manifold coco_pipe.dim_reduction.reducers.neighbor coco_pipe.dim_reduction.reducers.neural coco_pipe.dim_reduction.reducers.spatiotemporal coco_pipe.dim_reduction.reducers.topology coco_pipe.io coco_pipe.io.config coco_pipe.io.dataset coco_pipe.io.embeddings coco_pipe.io.load coco_pipe.io.provenance coco_pipe.io.quality coco_pipe.io.structures coco_pipe.io.transform coco_pipe.io.units coco_pipe.io.utils coco_pipe.report coco_pipe.report.api coco_pipe.report.config coco_pipe.report.core coco_pipe.report.decoding coco_pipe.report.decoding_comparison coco_pipe.report.descriptor_qc coco_pipe.report.dim_reduction coco_pipe.report.elements coco_pipe.report.foundation coco_pipe.report.qc coco_pipe.utils coco_pipe.viz coco_pipe.viz.base coco_pipe.viz.decoding coco_pipe.viz.dim_reduction coco_pipe.viz.interactive coco_pipe.viz.interactive.base coco_pipe.viz.interactive.decoding coco_pipe.viz.interactive.dim_reduction coco_pipe.viz.theme module_name (coco_pipe.decoding.configs.SkorchClassifierConfig attribute) momentum (coco_pipe.decoding.configs.MLPMixin attribute) monitor (coco_pipe.decoding.configs.CheckpointConfig attribute) monotonic_cst (coco_pipe.decoding.configs.HistGradientBoostingClassifierConfig attribute) (coco_pipe.decoding.configs.HistGradientBoostingRegressorConfig attribute) moving_average() (in module coco_pipe.dim_reduction.evaluation.geometry) multi_class (coco_pipe.decoding.configs.LinearSVCConfig attribute)

N

n_bands (coco_pipe.dim_reduction.reducers.spatiotemporal.TRCAReducer property) n_classes (coco_pipe.dim_reduction.reducers.spatiotemporal.TRCAReducer property) n_components (coco_pipe.decoding.configs.LDAConfig attribute) (coco_pipe.decoding.configs.ReducerConfig attribute) (coco_pipe.dim_reduction.config.BaseReducerConfig attribute) (coco_pipe.io.transform.SpatialWhitener attribute) n_dropped_extreme (coco_pipe.io.quality.QCResult attribute) n_dropped_nan_inf (coco_pipe.io.quality.QCResult attribute) n_epochs (coco_pipe.dim_reduction.config.ParametricUMAPConfig attribute) (coco_pipe.dim_reduction.config.UMAPConfig attribute) (coco_pipe.dim_reduction.reducers.neighbor.ParametricUMAPReducer attribute) n_epochs_dropped (coco_pipe.io.quality.QCResult property) n_epochs_without_progress (coco_pipe.dim_reduction.config.IVISConfig attribute) n_estimators (coco_pipe.decoding.configs.AdaBoostClassifierConfig attribute) (coco_pipe.decoding.configs.AdaBoostRegressorConfig attribute) (coco_pipe.decoding.configs.GradientBoostingMixin attribute) (coco_pipe.decoding.configs.TreeMixin attribute) n_features (coco_pipe.decoding.configs.FeatureSelectionConfig attribute) n_init (coco_pipe.dim_reduction.config.MDSConfig attribute) n_inliers (coco_pipe.dim_reduction.config.TrimapConfig attribute) (coco_pipe.dim_reduction.reducers.neighbor.TrimapReducer attribute) n_iter (coco_pipe.decoding.configs.TuningConfig attribute) n_iter_no_change (coco_pipe.decoding.configs.GradientBoostingMixin attribute) (coco_pipe.decoding.configs.HistGradientBoostingClassifierConfig attribute) (coco_pipe.decoding.configs.HistGradientBoostingRegressorConfig attribute) (coco_pipe.decoding.configs.MLPMixin attribute) n_jobs (coco_pipe.decoding.configs.CalibrationConfig attribute) (coco_pipe.decoding.configs.GeneralizingEstimatorConfig attribute) (coco_pipe.decoding.configs.KNeighborsClassifierConfig attribute) (coco_pipe.decoding.configs.KNeighborsRegressorConfig attribute) (coco_pipe.decoding.configs.LinearMixin attribute) (coco_pipe.decoding.configs.LogisticRegressionConfig attribute) (coco_pipe.decoding.configs.SlidingEstimatorConfig attribute) (coco_pipe.decoding.configs.TemporalDecoderConfig attribute) (coco_pipe.decoding.configs.TreeMixin attribute) (coco_pipe.decoding.configs.TuningConfig attribute) (coco_pipe.decoding.ExperimentConfig attribute) (coco_pipe.descriptors.configs.DescriptorRuntimeConfig attribute)

n_modes_ (coco_pipe.dim_reduction.reducers.spatiotemporal.DMDReducer property) n_neighbors (coco_pipe.decoding.configs.KNeighborsClassifierConfig attribute) (coco_pipe.decoding.configs.KNeighborsRegressorConfig attribute) (coco_pipe.dim_reduction.config.IsomapConfig attribute) (coco_pipe.dim_reduction.config.LLEConfig attribute) (coco_pipe.dim_reduction.config.PacmapConfig attribute) (coco_pipe.dim_reduction.config.ParametricUMAPConfig attribute) (coco_pipe.dim_reduction.config.UMAPConfig attribute) (coco_pipe.dim_reduction.reducers.neighbor.PacmapReducer attribute) (coco_pipe.dim_reduction.reducers.neighbor.ParametricUMAPReducer attribute) n_obs_in (coco_pipe.io.quality.QCResult attribute) n_obs_out (coco_pipe.io.quality.QCResult attribute) n_outlier_features (coco_pipe.io.quality.SubjectDropRecord attribute) n_outliers (coco_pipe.dim_reduction.config.TrimapConfig attribute) (coco_pipe.dim_reduction.reducers.neighbor.TrimapReducer attribute) n_outputs (coco_pipe.decoding.configs.FoundationEmbeddingModelConfig attribute) (coco_pipe.decoding.configs.NeuralFineTuneConfig attribute) (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier attribute) n_permutations (coco_pipe.decoding.configs.ChanceAssessmentConfig attribute) n_random (coco_pipe.dim_reduction.config.TrimapConfig attribute) (coco_pipe.dim_reduction.reducers.neighbor.TrimapReducer attribute) n_rows_entering_qc (coco_pipe.io.quality.QCResult attribute) n_splits (coco_pipe.decoding.configs.CVConfig attribute) n_subjects_dropped (coco_pipe.io.quality.QCResult property) n_subjects_in (coco_pipe.io.quality.QCResult attribute) n_subjects_out (coco_pipe.io.quality.QCResult attribute) name (coco_pipe.dim_reduction.BaseReducer property) needs_parametric_fit() (coco_pipe.descriptors.extractors.spectral.BandDescriptorExtractor method) nesterovs_momentum (coco_pipe.decoding.configs.MLPMixin attribute) NeuralFineTuneConfig (class in coco_pipe.decoding.configs) NeuralTrainable (class in coco_pipe.decoding.interfaces) nn_backend (coco_pipe.dim_reduction.config.PacmapConfig attribute) (coco_pipe.dim_reduction.reducers.neighbor.PacmapReducer attribute) normalize_embeddings (coco_pipe.decoding.configs.FoundationEmbeddingModelConfig attribute) (coco_pipe.decoding.foundation_models.extraction.FoundationEmbeddingExtractor attribute) normalize_inclusive_endpoint() (in module coco_pipe.decoding.foundation_models.extraction) normalize_subject_value() (in module coco_pipe.io.utils)

O

obs_chunk (coco_pipe.descriptors.configs.DescriptorRuntimeConfig attribute) obs_id (coco_pipe.io.quality.EpochDropRecord attribute) obs_index (coco_pipe.io.quality.EpochDropRecord attribute) obs_table() (coco_pipe.io.DataContainer method) observation_frame() (coco_pipe.io.DataContainer method) on_error (coco_pipe.descriptors.configs.DescriptorRuntimeConfig attribute) oob_score (coco_pipe.decoding.configs.ExtraTreesRegressorConfig attribute) (coco_pipe.decoding.configs.RandomForestClassifierConfig attribute) (coco_pipe.decoding.configs.RandomForestRegressorConfig attribute)

opt (coco_pipe.dim_reduction.config.DMDConfig attribute) optimizer (coco_pipe.decoding.configs.NeuralFineTuneConfig attribute) (coco_pipe.decoding.configs.SkorchClassifierConfig attribute) os_platform (coco_pipe.report.config.ProvenanceConfig attribute) outlier_fraction (coco_pipe.io.quality.EpochDropRecord attribute) (coco_pipe.io.quality.SubjectDropRecord attribute) output_dir (coco_pipe.decoding.configs.CheckpointConfig attribute) (coco_pipe.decoding.ExperimentConfig attribute) outputs (coco_pipe.descriptors.configs.BandDescriptorConfig attribute) (coco_pipe.descriptors.configs.ParametricDescriptorConfig attribute)

P

p (coco_pipe.decoding.configs.KNeighborsClassifierConfig attribute) (coco_pipe.decoding.configs.KNeighborsRegressorConfig attribute) (coco_pipe.dim_reduction.config.IsomapConfig attribute) (coco_pipe.dim_reduction.reducers.topology.TopologicalSignatureDistance attribute) p0 (coco_pipe.decoding.configs.ChanceAssessmentConfig attribute) PACKAGE_VERSIONS (in module coco_pipe.utils) PacmapConfig (class in coco_pipe.dim_reduction.config) PacmapReducer (class in coco_pipe.dim_reduction.reducers.neighbor) page_size (coco_pipe.report.elements.InteractiveTableElement attribute) paired_condition_stats() (in module coco_pipe.dim_reduction.evaluation.stats) parametric (coco_pipe.descriptors.configs.DescriptorFamiliesConfig attribute) parametric_fit_requirements() (coco_pipe.descriptors.extractors.base.BasePSDDescriptorExtractor method) (coco_pipe.descriptors.extractors.parametric.ParametricDescriptorExtractor method) (coco_pipe.descriptors.extractors.spectral.BandDescriptorExtractor method) ParametricDescriptorConfig (class in coco_pipe.descriptors.configs) ParametricDescriptorExtractor (class in coco_pipe.descriptors.extractors.parametric) ParametricUMAPConfig (class in coco_pipe.dim_reduction.config) ParametricUMAPReducer (class in coco_pipe.dim_reduction.reducers.neighbor) params (coco_pipe.decoding.configs.ClassicalModelConfig attribute) parse_descriptor_feature_column() (in module coco_pipe.descriptors.naming) parse_eval_specs() (in module coco_pipe.dim_reduction.config) parse_file() (coco_pipe.decoding.ExperimentConfig class method) partial_fit() (coco_pipe.dim_reduction.reducers.linear.IncrementalPCAReducer method) participation_ratio_ (coco_pipe.dim_reduction.reducers.linear.DaskPCAReducer property) (coco_pipe.dim_reduction.reducers.linear.DaskTruncatedSVDReducer property) (coco_pipe.dim_reduction.reducers.linear.IncrementalPCAReducer property) (coco_pipe.dim_reduction.reducers.linear.PCAReducer property) path (coco_pipe.io.config.BaseDatasetConfig attribute) (coco_pipe.io.dataset.EmbeddingDataset attribute) (coco_pipe.io.dataset.TabularDataset attribute) pattern (coco_pipe.io.config.EmbeddingConfig attribute) PCAConfig (class in coco_pipe.dim_reduction.config) PCAReducer (class in coco_pipe.dim_reduction.reducers.linear) peak_width_limits (coco_pipe.descriptors.configs.ParametricDescriptorConfig attribute) penalty (coco_pipe.decoding.configs.LinearSVCConfig attribute) (coco_pipe.decoding.configs.LogisticRegressionConfig attribute) (coco_pipe.decoding.configs.SGDMixin attribute) per_family_dropped (coco_pipe.io.quality.QCResult attribute) permutation_null_separation_auc() (in module coco_pipe.dim_reduction.evaluation.stats) perplexity (coco_pipe.dim_reduction.config.TSNEConfig attribute) perturbation_importance() (in module coco_pipe.dim_reduction.analysis) PHATEConfig (class in coco_pipe.dim_reduction.config) PHATEReducer (class in coco_pipe.dim_reduction.reducers.neighbor) plot_bar() (in module coco_pipe.viz.base) (in module coco_pipe.viz.interactive.base) plot_calibration_curve() (in module coco_pipe.viz.decoding) (in module coco_pipe.viz.interactive.decoding) plot_component_loadings() (in module coco_pipe.viz.dim_reduction) (in module coco_pipe.viz.interactive.dim_reduction) plot_confusion_matrix() (in module coco_pipe.viz) (in module coco_pipe.viz.decoding) (in module coco_pipe.viz.interactive.decoding) plot_coranking_matrix() (in module coco_pipe.viz.dim_reduction) (in module coco_pipe.viz.interactive.dim_reduction) plot_decoding_scores() (in module coco_pipe.viz) (in module coco_pipe.viz.decoding) (in module coco_pipe.viz.interactive.decoding) plot_decoding_topomap() (in module coco_pipe.viz.decoding) plot_distribution_groups() (in module coco_pipe.viz.base) (in module coco_pipe.viz.interactive.base) plot_eigenvalues() (in module coco_pipe.viz.dim_reduction) plot_embedding() (in module coco_pipe.viz) (in module coco_pipe.viz.dim_reduction) (in module coco_pipe.viz.interactive.dim_reduction) plot_error_points() (in module coco_pipe.viz.base) plot_feature_correlation_heatmap() (in module coco_pipe.viz.dim_reduction) (in module coco_pipe.viz.interactive.dim_reduction) plot_feature_importance() (in module coco_pipe.viz.decoding) (in module coco_pipe.viz.dim_reduction) (in module coco_pipe.viz.interactive.decoding) (in module coco_pipe.viz.interactive.dim_reduction) plot_feature_scores() (in module coco_pipe.viz.decoding) (in module coco_pipe.viz.interactive.decoding) plot_feature_sensor_profile() (in module coco_pipe.viz.decoding) plot_feature_stability() (in module coco_pipe.viz.decoding) (in module coco_pipe.viz.interactive.decoding) plot_fit_diagnostics() (in module coco_pipe.viz.decoding) (in module coco_pipe.viz.interactive.decoding) plot_fold_score_dispersion() (in module coco_pipe.viz.decoding) (in module coco_pipe.viz.interactive.decoding) plot_group_summary() (in module coco_pipe.viz.decoding) (in module coco_pipe.viz.interactive.decoding) plot_grouped_bar() (in module coco_pipe.viz.interactive.base) plot_head_to_head() (in module coco_pipe.viz.decoding) plot_heatmap() (in module coco_pipe.viz.base) (in module coco_pipe.viz.interactive.base) plot_hexbin() (in module coco_pipe.viz.base) plot_histogram() (in module coco_pipe.viz.base) plot_line() (in module coco_pipe.viz.base) plot_loss_history() (in module coco_pipe.viz.dim_reduction) (in module coco_pipe.viz.interactive.dim_reduction)

plot_metrics() (in module coco_pipe.viz.dim_reduction) (in module coco_pipe.viz.interactive.dim_reduction) plot_model_comparison() (in module coco_pipe.viz.decoding) (in module coco_pipe.viz.interactive.decoding) plot_null_interval_summary() (in module coco_pipe.viz.decoding) (in module coco_pipe.viz.interactive.decoding) plot_paired_delta() (in module coco_pipe.viz.decoding) plot_phase_portrait() (in module coco_pipe.viz.dim_reduction) (in module coco_pipe.viz.interactive.dim_reduction) plot_pr_curve() (in module coco_pipe.viz.decoding) (in module coco_pipe.viz.interactive.decoding) plot_probability_diagnostics() (in module coco_pipe.viz.decoding) (in module coco_pipe.viz.interactive.decoding) plot_radar_comparison() (in module coco_pipe.viz.interactive.dim_reduction) plot_raw_preview() (in module coco_pipe.viz.interactive.dim_reduction) plot_regression_diagnostics() (in module coco_pipe.viz.decoding) (in module coco_pipe.viz.interactive.decoding) plot_roc_curve() (in module coco_pipe.viz) (in module coco_pipe.viz.decoding) (in module coco_pipe.viz.interactive.decoding) plot_roi_sensors() (in module coco_pipe.viz.base) plot_scatter() (in module coco_pipe.viz.interactive.base) plot_scatter2d() (in module coco_pipe.viz.base) plot_scatter3d() (in module coco_pipe.viz.base) plot_scree() (in module coco_pipe.viz.dim_reduction) (in module coco_pipe.viz.interactive.dim_reduction) plot_search_results() (in module coco_pipe.viz.decoding) (in module coco_pipe.viz.interactive.decoding) plot_sensor_feature_heatmap() (in module coco_pipe.viz.decoding) plot_sensor_feature_profile() (in module coco_pipe.viz.decoding) plot_shepard_diagram() (in module coco_pipe.viz.dim_reduction) (in module coco_pipe.viz.interactive.dim_reduction) plot_streamfield() (in module coco_pipe.viz.base) plot_streamlines() (in module coco_pipe.viz.dim_reduction) (in module coco_pipe.viz.interactive.dim_reduction) plot_subject_diagnostics() (in module coco_pipe.viz.decoding) (in module coco_pipe.viz.interactive.decoding) plot_temporal_generalization_matrix() (in module coco_pipe.viz.decoding) (in module coco_pipe.viz.interactive.decoding) plot_temporal_score_curve() (in module coco_pipe.viz.decoding) (in module coco_pipe.viz.interactive.decoding) plot_temporal_statistical_assessment() (in module coco_pipe.viz.decoding) (in module coco_pipe.viz.interactive.decoding) plot_timecourses() (in module coco_pipe.viz.base) plot_topomap() (in module coco_pipe.viz) (in module coco_pipe.viz.base) plot_training_history() (in module coco_pipe.viz.decoding) (in module coco_pipe.viz.interactive.decoding) plot_trajectory() (in module coco_pipe.viz.dim_reduction) (in module coco_pipe.viz.interactive.dim_reduction) plot_trajectory_metric_series() (in module coco_pipe.viz.dim_reduction) (in module coco_pipe.viz.interactive.dim_reduction) plot_trajectory_separation() (in module coco_pipe.viz.dim_reduction) (in module coco_pipe.viz.interactive.dim_reduction) PlotlyElement (class in coco_pipe.report.elements) pool_channels() (coco_pipe.descriptors.core.DescriptorPipeline method) pooling (coco_pipe.decoding.configs.FoundationEmbeddingModelConfig attribute) (coco_pipe.decoding.foundation_models.estimators.FrozenBackboneTransformer attribute) (coco_pipe.decoding.foundation_models.extraction.FoundationEmbeddingExtractor attribute) position (coco_pipe.decoding.configs.GeneralizingEstimatorConfig attribute) (coco_pipe.decoding.configs.SlidingEstimatorConfig attribute) (coco_pipe.decoding.configs.TemporalDecoderConfig attribute) positive (coco_pipe.decoding.configs.LinearRegressionConfig attribute) (coco_pipe.decoding.configs.RegularizedLinearMixin attribute) power_t (coco_pipe.decoding.configs.MLPMixin attribute) (coco_pipe.decoding.configs.SGDMixin attribute) precision (coco_pipe.decoding.configs.DeviceConfig attribute) (coco_pipe.descriptors.configs.DescriptorConfig attribute) precompute (coco_pipe.decoding.configs.ElasticNetConfig attribute) (coco_pipe.decoding.configs.LassoConfig attribute) predict() (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier method) (coco_pipe.decoding.interfaces.DecoderEstimator method) predict_proba() (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier method) prepare_eval_inputs() (in module coco_pipe.dim_reduction.pipeline) prepare_target() (in module coco_pipe.decoding.targets) prepared_ (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier attribute) (coco_pipe.decoding.foundation_models.estimators.FrozenBackboneTransformer attribute) priors (coco_pipe.decoding.configs.GaussianNBConfig attribute) (coco_pipe.decoding.configs.LDAConfig attribute) probability (coco_pipe.decoding.configs.SVCConfig attribute) processing (coco_pipe.io.config.EmbeddingConfig attribute) ProgressBarElement (class in coco_pipe.report.elements) provenance (coco_pipe.report.config.ReportConfig attribute) ProvenanceConfig (class in coco_pipe.report.config) psd_groups (coco_pipe.descriptors.core.DescriptorPipeline attribute) psd_method (coco_pipe.descriptors.configs.BandDescriptorConfig attribute) (coco_pipe.descriptors.configs.ParametricDescriptorConfig attribute) psd_request() (coco_pipe.descriptors.extractors.base.BasePSDDescriptorExtractor method) (coco_pipe.descriptors.extractors.parametric.ParametricDescriptorExtractor method) (coco_pipe.descriptors.extractors.spectral.BandDescriptorExtractor method) python_version (coco_pipe.report.config.ProvenanceConfig attribute)

Q

Q (coco_pipe.dim_reduction.evaluation.result.EmbeddingQualityResult property) QCResult (class in coco_pipe.io.quality) QUALITATIVE (in module coco_pipe.viz.theme) QUALITATIVE_COLORBLIND (in module coco_pipe.viz.theme)

quant_type (coco_pipe.decoding.configs.QuantizationConfig attribute) quantile (coco_pipe.decoding.configs.DummyRegressorConfig attribute) quantization (coco_pipe.decoding.configs.NeuralFineTuneConfig attribute) QuantizationConfig (class in coco_pipe.decoding.configs)

R

r (coco_pipe.decoding.configs.LoRAConfig attribute) random_state (coco_pipe.decoding.configs.AdaBoostClassifierConfig attribute) (coco_pipe.decoding.configs.AdaBoostRegressorConfig attribute) (coco_pipe.decoding.configs.CVConfig attribute) (coco_pipe.decoding.configs.DecisionTreeRegressorConfig attribute) (coco_pipe.decoding.configs.DummyClassifierConfig attribute) (coco_pipe.decoding.configs.GradientBoostingMixin attribute) (coco_pipe.decoding.configs.HistGradientBoostingClassifierConfig attribute) (coco_pipe.decoding.configs.HistGradientBoostingRegressorConfig attribute) (coco_pipe.decoding.configs.LinearSVCConfig attribute) (coco_pipe.decoding.configs.LogisticRegressionConfig attribute) (coco_pipe.decoding.configs.MLPMixin attribute) (coco_pipe.decoding.configs.ReducerConfig attribute) (coco_pipe.decoding.configs.RegularizedLinearMixin attribute) (coco_pipe.decoding.configs.StatisticalAssessmentConfig attribute) (coco_pipe.decoding.configs.SVCConfig attribute) (coco_pipe.decoding.configs.TreeMixin attribute) (coco_pipe.decoding.configs.TuningConfig attribute) (coco_pipe.decoding.ExperimentConfig attribute) (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier attribute) (coco_pipe.dim_reduction.config.StochasticReducerConfig attribute) (coco_pipe.dim_reduction.DimReduction property) RandomForestClassifierConfig (class in coco_pipe.decoding.configs) RandomForestRegressorConfig (class in coco_pipe.decoding.configs) rank_methods() (coco_pipe.dim_reduction.evaluation.core.MethodSelector method) (coco_pipe.dim_reduction.evaluation.MethodSelector method) ratio_pairs (coco_pipe.descriptors.configs.BandDescriptorConfig attribute) read_bids_entry() (in module coco_pipe.io.utils) read_raw_bids (in module coco_pipe.io.utils) reader (coco_pipe.io.dataset.EmbeddingDataset attribute) reason (coco_pipe.decoding.foundation_models.extraction.CapabilityResult attribute) reconstructed_data_ (coco_pipe.dim_reduction.reducers.spatiotemporal.DMDReducer property) reconstruction_error_ (coco_pipe.dim_reduction.reducers.manifold.IsomapReducer property) (coco_pipe.dim_reduction.reducers.manifold.LLEReducer property) recording_embedding (coco_pipe.decoding.foundation_models.extraction.FoundationEmbeddingResult attribute) recording_pooling (coco_pipe.decoding.foundation_models.extraction.FoundationEmbeddingExtractor attribute) redact_sensitive() (in module coco_pipe.decoding.persistence) reducer (coco_pipe.decoding.ExperimentConfig attribute) ReducerConfig (class in coco_pipe.decoding.configs) register_estimator() (in module coco_pipe.decoding) (in module coco_pipe.decoding.registry) register_estimator_spec() (in module coco_pipe.decoding.registry) registry_id (coco_pipe.report.elements.DownloadAssetElement attribute) (coco_pipe.report.elements.InteractiveTableElement attribute) (coco_pipe.report.elements.PlotlyElement attribute) RegularizedLinearMixin (class in coco_pipe.decoding.configs) render() (coco_pipe.report.elements.AccordionElement method) (coco_pipe.report.elements.BadgeElement method) (coco_pipe.report.elements.CalloutElement method) (coco_pipe.report.elements.CodeBlockElement method) (coco_pipe.report.elements.ColumnsElement method) (coco_pipe.report.elements.ContainerElement method) (coco_pipe.report.elements.DownloadAssetElement method) (coco_pipe.report.elements.Element method) (coco_pipe.report.elements.HtmlElement method) (coco_pipe.report.elements.ImageElement method) (coco_pipe.report.elements.InteractiveTableElement method) (coco_pipe.report.elements.MarkdownElement method) (coco_pipe.report.elements.PlotlyElement method) (coco_pipe.report.elements.ProgressBarElement method) (coco_pipe.report.elements.StatCardElement method) (coco_pipe.report.elements.TableElement method) (coco_pipe.report.elements.TabsElement method) (coco_pipe.report.elements.TimelineElement method) (coco_pipe.report.Report method) (coco_pipe.report.Section method)

render_children() (coco_pipe.report.elements.ContainerElement method) (coco_pipe.report.Report method) (coco_pipe.report.Section method) Report (class in coco_pipe.report) ReportConfig (class in coco_pipe.report.config) requested_device (coco_pipe.dim_reduction.reducers.topology.TopologicalAEReducer attribute) require_channel_names (coco_pipe.descriptors.configs.DescriptorInputConfig attribute) require_sfreq (coco_pipe.descriptors.configs.DescriptorInputConfig attribute) resample (coco_pipe.decoding.foundation_models.extraction.FoundationEmbeddingExtractor attribute) resolve_estimator_capabilities() (in module coco_pipe.decoding.registry) resolve_estimator_spec() (in module coco_pipe.decoding.registry) resolve_n_jobs() (in module coco_pipe.utils) resolve_qc_status() (in module coco_pipe.io.quality) restore_checkpoint() (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier method) result_ (coco_pipe.decoding.experiment.Experiment attribute) ResultCollection (class in coco_pipe.report.decoding_comparison) results (coco_pipe.decoding.experiment.Experiment attribute) (coco_pipe.report.decoding_comparison.ResultCollection attribute) retention_rate (coco_pipe.io.quality.QCResult property) RidgeConfig (class in coco_pipe.decoding.configs) rms_scale() (coco_pipe.io.DataContainer method) root (coco_pipe.io.dataset.BIDSDataset attribute) row_quality_score() (in module coco_pipe.io.utils) run (coco_pipe.io.config.EmbeddingConfig attribute) run() (coco_pipe.decoding.Experiment method) (coco_pipe.decoding.experiment.Experiment method) run_eval() (in module coco_pipe.dim_reduction.pipeline) run_fit() (in module coco_pipe.dim_reduction.pipeline) run_fit_group() (in module coco_pipe.dim_reduction.pipeline) run_paired_permutation_assessment() (in module coco_pipe.decoding.stats) run_params (coco_pipe.report.config.ReportConfig attribute) run_qc() (in module coco_pipe.io.quality) run_statistical_assessment() (in module coco_pipe.decoding) (in module coco_pipe.decoding.stats) run_task_batch() (in module coco_pipe.utils) runs (coco_pipe.io.config.BIDSConfig attribute) (coco_pipe.io.dataset.BIDSDataset attribute) runtime (coco_pipe.descriptors.configs.DescriptorConfig attribute)

S

safe_group_n_splits() (in module coco_pipe.decoding.targets) sample_indices() (in module coco_pipe.io.utils) save (coco_pipe.decoding.configs.CheckpointConfig attribute) save() (coco_pipe.decoding.ExperimentResult method) (coco_pipe.dim_reduction.BaseReducer method) (coco_pipe.dim_reduction.DimReduction method) (coco_pipe.dim_reduction.evaluation.result.EmbeddingQualityResult method) (coco_pipe.dim_reduction.evaluation.result.TrajectoryResult method) (coco_pipe.dim_reduction.evaluation.result.VelocityResult method) (coco_pipe.dim_reduction.reducers.neighbor.ParametricUMAPReducer method) (coco_pipe.io.DataContainer method) (coco_pipe.report.Report method) save_descriptor_table() (in module coco_pipe.descriptors.io) save_embedding_derivative() (in module coco_pipe.io.embeddings) save_eval_artifact() (in module coco_pipe.dim_reduction.artifacts) save_figure() (in module coco_pipe.viz) (in module coco_pipe.viz.theme) save_fit_artifact() (in module coco_pipe.dim_reduction.artifacts) score() (coco_pipe.dim_reduction.DimReduction method) scoring (coco_pipe.decoding.configs.FeatureSelectionConfig attribute) (coco_pipe.decoding.configs.GeneralizingEstimatorConfig attribute) (coco_pipe.decoding.configs.HistGradientBoostingClassifierConfig attribute) (coco_pipe.decoding.configs.HistGradientBoostingRegressorConfig attribute) (coco_pipe.decoding.configs.SlidingEstimatorConfig attribute) (coco_pipe.decoding.configs.TemporalDecoderConfig attribute) (coco_pipe.decoding.configs.TuningConfig attribute) search_type (coco_pipe.decoding.configs.TuningConfig attribute) Section (class in coco_pipe.report) SectionDataUnavailable SectionSelection (in module coco_pipe.report.api) select() (coco_pipe.io.DataContainer method) select_kwargs (coco_pipe.io.config.TabularConfig attribute) (coco_pipe.io.dataset.TabularDataset attribute) select_viable_feature_columns() (in module coco_pipe.descriptors.qc) selection (coco_pipe.decoding.configs.ElasticNetConfig attribute) (coco_pipe.decoding.configs.LassoConfig attribute) selection_k (coco_pipe.dim_reduction.config.EvaluationConfig attribute) selection_metric (coco_pipe.dim_reduction.config.EvaluationConfig attribute) selector_columns (coco_pipe.report.elements.InteractiveTableElement attribute) sep (coco_pipe.io.config.TabularConfig attribute) (coco_pipe.io.dataset.TabularDataset attribute) separation_method (coco_pipe.dim_reduction.config.EvaluationConfig attribute) SEQUENTIAL (in module coco_pipe.viz.theme) session (coco_pipe.io.config.BIDSConfig attribute) (coco_pipe.io.dataset.BIDSDataset attribute) set_coco_theme() (in module coco_pipe.viz) (in module coco_pipe.viz.theme) set_op_mix_ratio (coco_pipe.dim_reduction.config.UMAPConfig attribute) set_params() (coco_pipe.decoding.interfaces.DecoderEstimator method) severity (coco_pipe.io.quality.CheckResult attribute) sfreq (coco_pipe.decoding.configs.FoundationEmbeddingModelConfig attribute) (coco_pipe.decoding.configs.NeuralFineTuneConfig attribute) (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier attribute) (coco_pipe.decoding.foundation_models.estimators.FrozenBackboneTransformer attribute) (coco_pipe.dim_reduction.config.TRCAConfig attribute) (coco_pipe.dim_reduction.reducers.spatiotemporal.TRCAReducer attribute) SGDClassifierConfig (class in coco_pipe.decoding.configs) SGDMixin (class in coco_pipe.decoding.configs) SGDRegressorConfig (class in coco_pipe.decoding.configs) shape (coco_pipe.io.DataContainer property) sheet_name (coco_pipe.io.config.TabularConfig attribute) (coco_pipe.io.dataset.TabularDataset attribute) shepard_diagram_data() (in module coco_pipe.dim_reduction.evaluation.metrics) show() (coco_pipe.report.Report method) shrinkage (coco_pipe.decoding.configs.LDAConfig attribute) shrinking (coco_pipe.decoding.configs.SupportVectorMixin attribute) shuffle (coco_pipe.decoding.configs.CVConfig attribute) (coco_pipe.decoding.configs.MLPMixin attribute) (coco_pipe.decoding.configs.SGDMixin attribute)

signal_extractors (coco_pipe.descriptors.core.DescriptorPipeline attribute) SklearnWrapper (class in coco_pipe.io.transform) SkorchClassifierConfig (class in coco_pipe.decoding.configs) slice_time() (coco_pipe.dim_reduction.evaluation.result.TrajectoryResult method) SlidingEstimatorConfig (class in coco_pipe.decoding.configs) slug() (in module coco_pipe.utils) solver (coco_pipe.decoding.configs.LDAConfig attribute) (coco_pipe.decoding.configs.LogisticRegressionConfig attribute) (coco_pipe.decoding.configs.MLPMixin attribute) (coco_pipe.decoding.configs.RidgeConfig attribute) source (coco_pipe.report.config.ProvenanceConfig attribute) SpatialWhitener (class in coco_pipe.io.transform) SpectralEmbeddingConfig (class in coco_pipe.dim_reduction.config) SpectralEmbeddingReducer (class in coco_pipe.dim_reduction.reducers.manifold) split_column() (in module coco_pipe.io.utils) split_family_token() (in module coco_pipe.descriptors.naming) splitter (coco_pipe.decoding.configs.DecisionTreeRegressorConfig attribute) spread (coco_pipe.dim_reduction.config.UMAPConfig attribute) src (coco_pipe.report.elements.ImageElement attribute) stable_hash() (in module coco_pipe.utils) stack() (coco_pipe.io.DataContainer method) StatCardElement (class in coco_pipe.report.elements) statistical_assessment (coco_pipe.decoding.ExperimentConfig attribute) StatisticalAssessmentConfig (class in coco_pipe.decoding.configs) status (coco_pipe.decoding.foundation_models.extraction.CapabilityResult attribute) (coco_pipe.io.quality.CheckResult attribute) StochasticReducerConfig (class in coco_pipe.dim_reduction.config) store_covariance (coco_pipe.decoding.configs.LDAConfig attribute) store_null_distribution (coco_pipe.decoding.configs.ChanceAssessmentConfig attribute) strategy (coco_pipe.decoding.configs.CVConfig attribute) (coco_pipe.decoding.configs.DummyClassifierConfig attribute) (coco_pipe.decoding.configs.DummyRegressorConfig attribute) stratify (coco_pipe.decoding.configs.CVConfig attribute) stress_ (coco_pipe.dim_reduction.reducers.manifold.MDSReducer property) strict_reshaping (coco_pipe.io.dataset.TabularDataset attribute) stride (coco_pipe.io.config.BIDSConfig attribute) (coco_pipe.io.dataset.BIDSDataset attribute) style (coco_pipe.report.elements.DownloadAssetElement attribute) subject_drop_threshold (coco_pipe.io.quality.QCResult attribute) subject_id (coco_pipe.io.quality.SubjectDropRecord attribute) subject_key (coco_pipe.io.dataset.BIDSDataset attribute) subject_metadata_df (coco_pipe.io.dataset.BIDSDataset attribute) subject_outlier_burden (coco_pipe.io.quality.QCResult attribute) subject_outlier_fraction_threshold (coco_pipe.io.quality.QCResult attribute) SubjectDropRecord (class in coco_pipe.io.quality) subjects (coco_pipe.dim_reduction.evaluation.result.TrajectoryResult attribute) (coco_pipe.io.config.BaseDatasetConfig attribute) (coco_pipe.io.dataset.BIDSDataset attribute) (coco_pipe.io.dataset.EmbeddingDataset attribute) subjects_dropped (coco_pipe.io.quality.QCResult attribute) SubjectStandardScaler (class in coco_pipe.decoding.scalers) subsample (coco_pipe.decoding.configs.GradientBoostingMixin attribute) successful_summary (coco_pipe.report.decoding_comparison.ResultCollection property) suffix (coco_pipe.io.config.BIDSConfig attribute) (coco_pipe.io.dataset.BIDSDataset attribute) summarize_failures() (in module coco_pipe.descriptors.qc) summary (coco_pipe.report.decoding_comparison.ResultCollection attribute) summary() (coco_pipe.decoding.ExperimentResult method) (coco_pipe.dim_reduction.evaluation.result.EmbeddingQualityResult method) (coco_pipe.io.quality.QCResult method) supervise_metric (coco_pipe.dim_reduction.config.IVISConfig attribute) supports_nested_components() (in module coco_pipe.dim_reduction.pipeline) SupportVectorMixin (class in coco_pipe.decoding.configs) SVCConfig (class in coco_pipe.decoding.configs) svd_rank (coco_pipe.dim_reduction.reducers.spatiotemporal.DMDReducer property) svd_solver (coco_pipe.decoding.configs.ReducerConfig attribute) (coco_pipe.dim_reduction.config.DaskPCAConfig attribute) (coco_pipe.dim_reduction.config.PCAConfig attribute) (coco_pipe.dim_reduction.reducers.linear.DaskPCAReducer attribute) SVRConfig (class in coco_pipe.decoding.configs)

T

t (coco_pipe.dim_reduction.config.PHATEConfig attribute) (coco_pipe.dim_reduction.reducers.neighbor.PHATEReducer attribute) table_id (coco_pipe.report.elements.TableElement attribute) TableElement (class in coco_pipe.report.elements) tabs (coco_pipe.report.elements.TabsElement attribute) TabsElement (class in coco_pipe.report.elements) TabularConfig (class in coco_pipe.io.config) TabularDataset (class in coco_pipe.io.dataset) tag (coco_pipe.decoding.ExperimentConfig attribute) target_col (coco_pipe.io.config.BIDSConfig attribute) (coco_pipe.io.config.TabularConfig attribute) (coco_pipe.io.dataset.BIDSDataset attribute) (coco_pipe.io.dataset.TabularDataset attribute) target_modules (coco_pipe.decoding.configs.LoRAConfig attribute) task (coco_pipe.decoding.ExperimentConfig attribute) (coco_pipe.io.config.BIDSConfig attribute) (coco_pipe.io.config.EmbeddingConfig attribute) (coco_pipe.io.dataset.BIDSDataset attribute) TEMPORAL_COLUMNS (in module coco_pipe.decoding.stats) temporal_correction (coco_pipe.decoding.configs.ChanceAssessmentConfig attribute) TemporalDecoderConfig (class in coco_pipe.decoding.configs) test_size (coco_pipe.decoding.configs.CVConfig attribute) text (coco_pipe.report.elements.BadgeElement attribute) (coco_pipe.report.elements.CalloutElement attribute) (coco_pipe.report.elements.MarkdownElement attribute) ThemeMode (in module coco_pipe.viz.theme) threshold_lambda (coco_pipe.decoding.configs.ARDRegressionConfig attribute) thresholds (coco_pipe.io.quality.QCResult attribute) tie_breakers (coco_pipe.dim_reduction.config.EvaluationConfig attribute) time_axis (coco_pipe.decoding.ExperimentResult property) TimelineElement (class in coco_pipe.report.elements) times (coco_pipe.dim_reduction.evaluation.result.TrajectoryResult attribute) (coco_pipe.dim_reduction.evaluation.result.VelocityResult attribute) timestamp_utc (coco_pipe.report.config.ProvenanceConfig attribute) title (coco_pipe.report.config.ReportConfig attribute) (coco_pipe.report.elements.CalloutElement attribute) (coco_pipe.report.elements.CodeBlockElement attribute) (coco_pipe.report.elements.InteractiveTableElement attribute) (coco_pipe.report.elements.TableElement attribute) tlsq_rank (coco_pipe.dim_reduction.config.DMDConfig attribute) tmax (coco_pipe.io.config.BIDSConfig attribute) (coco_pipe.io.dataset.BIDSDataset attribute) tmin (coco_pipe.io.config.BIDSConfig attribute) (coco_pipe.io.dataset.BIDSDataset attribute) to_dict() (coco_pipe.decoding.foundation_models.extraction.CapabilityResult method) to_frame() (coco_pipe.dim_reduction.evaluation.core.MethodSelector method) (coco_pipe.dim_reduction.evaluation.MethodSelector method) to_payload() (coco_pipe.decoding.ExperimentResult method) to_reducer_kwargs() (coco_pipe.dim_reduction.config.BaseReducerConfig method) (coco_pipe.dim_reduction.config.LLEConfig method) to_score_kwargs() (coco_pipe.dim_reduction.config.EvaluationConfig method) tol (coco_pipe.decoding.configs.ARDRegressionConfig attribute) (coco_pipe.decoding.configs.BayesianRidgeConfig attribute) (coco_pipe.decoding.configs.FeatureSelectionConfig attribute) (coco_pipe.decoding.configs.GradientBoostingMixin attribute) (coco_pipe.decoding.configs.HistGradientBoostingClassifierConfig attribute) (coco_pipe.decoding.configs.HistGradientBoostingRegressorConfig attribute) (coco_pipe.decoding.configs.LDAConfig attribute) (coco_pipe.decoding.configs.LinearSVCConfig attribute) (coco_pipe.decoding.configs.LogisticRegressionConfig attribute) (coco_pipe.decoding.configs.MLPMixin attribute) (coco_pipe.decoding.configs.RegularizedLinearMixin attribute) (coco_pipe.decoding.configs.SGDMixin attribute) (coco_pipe.decoding.configs.SupportVectorMixin attribute)

TopologicalAEConfig (class in coco_pipe.dim_reduction.config) TopologicalAEReducer (class in coco_pipe.dim_reduction.reducers.topology) TopologicalSignatureDistance (class in coco_pipe.dim_reduction.reducers.topology) total_dropped (coco_pipe.io.quality.QCResult property) train_mode (coco_pipe.decoding.configs.FoundationEmbeddingModelConfig attribute) (coco_pipe.decoding.configs.NeuralFineTuneConfig attribute) (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier attribute) (coco_pipe.decoding.foundation_models.extraction.CapabilityResult attribute) trainer (coco_pipe.decoding.configs.NeuralFineTuneConfig attribute) (coco_pipe.decoding.foundation_models.estimators.FoundationClassifier attribute) TrainerConfig (class in coco_pipe.decoding.configs) trajectories (coco_pipe.dim_reduction.evaluation.result.TrajectoryResult attribute) trajectory_acceleration() (in module coco_pipe.dim_reduction.evaluation.geometry) trajectory_auc_speed() (in module coco_pipe.dim_reduction.evaluation.geometry) trajectory_cohesion() (in module coco_pipe.dim_reduction.evaluation.geometry) trajectory_curvature() (in module coco_pipe.dim_reduction.evaluation.geometry) trajectory_dispersion() (in module coco_pipe.dim_reduction.evaluation.geometry) trajectory_displacement() (in module coco_pipe.dim_reduction.evaluation.geometry) trajectory_distance_from_center() (in module coco_pipe.dim_reduction.evaluation.geometry) trajectory_intra_spread() (in module coco_pipe.dim_reduction.evaluation.geometry) trajectory_jerk() (in module coco_pipe.dim_reduction.evaluation.geometry) trajectory_path_length() (in module coco_pipe.dim_reduction.evaluation.geometry) trajectory_separation() (in module coco_pipe.dim_reduction.evaluation.geometry) trajectory_speed() (in module coco_pipe.dim_reduction.evaluation.geometry) trajectory_tortuosity() (in module coco_pipe.dim_reduction.evaluation.geometry) trajectory_turning_angle() (in module coco_pipe.dim_reduction.evaluation.geometry) TrajectoryResult (class in coco_pipe.dim_reduction.evaluation.result) transform() (coco_pipe.decoding.foundation_models.estimators.FrozenBackboneTransformer method) (coco_pipe.decoding.interfaces.EmbeddingExtractor method) (coco_pipe.decoding.scalers.SubjectStandardScaler method) (coco_pipe.dim_reduction.BaseReducer method) (coco_pipe.dim_reduction.DimReduction method) (coco_pipe.dim_reduction.reducers.linear.DaskPCAReducer method) (coco_pipe.dim_reduction.reducers.linear.DaskTruncatedSVDReducer method) (coco_pipe.dim_reduction.reducers.linear.IncrementalPCAReducer method) (coco_pipe.dim_reduction.reducers.linear.PCAReducer method) (coco_pipe.dim_reduction.reducers.manifold.IsomapReducer method) (coco_pipe.dim_reduction.reducers.manifold.LLEReducer method) (coco_pipe.dim_reduction.reducers.manifold.MDSReducer method) (coco_pipe.dim_reduction.reducers.manifold.SpectralEmbeddingReducer method) (coco_pipe.dim_reduction.reducers.neighbor.PacmapReducer method) (coco_pipe.dim_reduction.reducers.neighbor.ParametricUMAPReducer method) (coco_pipe.dim_reduction.reducers.neighbor.PHATEReducer method) (coco_pipe.dim_reduction.reducers.neighbor.TrimapReducer method) (coco_pipe.dim_reduction.reducers.neighbor.TSNEReducer method) (coco_pipe.dim_reduction.reducers.neighbor.UMAPReducer method) (coco_pipe.dim_reduction.reducers.neural.IVISReducer method) (coco_pipe.dim_reduction.reducers.spatiotemporal.DMDReducer method) (coco_pipe.dim_reduction.reducers.spatiotemporal.TRCAReducer method) (coco_pipe.dim_reduction.reducers.topology.TopologicalAEReducer method) (coco_pipe.io.transform.SklearnWrapper method) (coco_pipe.io.transform.SpatialWhitener method) transformer (coco_pipe.io.transform.SklearnWrapper attribute) TRCAConfig (class in coco_pipe.dim_reduction.config) TRCAReducer (class in coco_pipe.dim_reduction.reducers.spatiotemporal) TreeMixin (class in coco_pipe.decoding.configs) TrimapConfig (class in coco_pipe.dim_reduction.config) TrimapReducer (class in coco_pipe.dim_reduction.reducers.neighbor) trustworthiness() (in module coco_pipe.dim_reduction.evaluation.metrics) TSNEConfig (class in coco_pipe.dim_reduction.config) TSNEReducer (class in coco_pipe.dim_reduction.reducers.neighbor) tuning (coco_pipe.decoding.ExperimentConfig attribute) TuningConfig (class in coco_pipe.decoding.configs)

U

UMAPConfig (class in coco_pipe.dim_reduction.config) UMAPReducer (class in coco_pipe.dim_reduction.reducers.neighbor) unit (coco_pipe.report.elements.StatCardElement attribute) unit_of_inference (coco_pipe.decoding.configs.StatisticalAssessmentConfig attribute)

units (coco_pipe.io.config.BIDSConfig attribute) (coco_pipe.io.dataset.BIDSDataset attribute) unstack() (coco_pipe.io.DataContainer method) update_runs() (in module coco_pipe.dim_reduction.artifacts) use_scaler (coco_pipe.decoding.ExperimentConfig attribute)

V

valid_component_sweep() (in module coco_pipe.dim_reduction.pipeline) valid_n_components_for_container() (in module coco_pipe.dim_reduction.pipeline) VALID_SECTIONS (in module coco_pipe.report.decoding) validate() (coco_pipe.decoding.ExperimentConfig class method) validate_embedding_derivative() (in module coco_pipe.io.embeddings) validate_real_checkpoints() (in module coco_pipe.decoding.foundation_models.validation) validate_real_training() (in module coco_pipe.decoding.foundation_models.validation) validate_runtime_inputs() (in module coco_pipe.descriptors.validation) validation_fraction (coco_pipe.decoding.configs.GradientBoostingMixin attribute) (coco_pipe.decoding.configs.HistGradientBoostingClassifierConfig attribute) (coco_pipe.decoding.configs.HistGradientBoostingRegressorConfig attribute) (coco_pipe.decoding.configs.MLPMixin attribute) (coco_pipe.decoding.configs.TrainerConfig attribute) value (coco_pipe.report.elements.ProgressBarElement attribute) (coco_pipe.report.elements.StatCardElement attribute) var_smoothing (coco_pipe.decoding.configs.GaussianNBConfig attribute) VelocityResult (class in coco_pipe.dim_reduction.evaluation.result) verbose (coco_pipe.decoding.configs.ARDRegressionConfig attribute) (coco_pipe.decoding.configs.BayesianRidgeConfig attribute) (coco_pipe.decoding.configs.GeneralizingEstimatorConfig attribute) (coco_pipe.decoding.configs.GradientBoostingMixin attribute) (coco_pipe.decoding.configs.HistGradientBoostingClassifierConfig attribute) (coco_pipe.decoding.configs.HistGradientBoostingRegressorConfig attribute) (coco_pipe.decoding.configs.LinearSVCConfig attribute) (coco_pipe.decoding.configs.LogisticRegressionConfig attribute) (coco_pipe.decoding.configs.MLPMixin attribute) (coco_pipe.decoding.configs.SGDMixin attribute) (coco_pipe.decoding.configs.SlidingEstimatorConfig attribute) (coco_pipe.decoding.configs.SupportVectorMixin attribute) (coco_pipe.decoding.configs.TemporalDecoderConfig attribute) (coco_pipe.decoding.configs.TreeMixin attribute) (coco_pipe.decoding.ExperimentConfig attribute) (coco_pipe.dim_reduction.config.ParametricUMAPConfig attribute) (coco_pipe.dim_reduction.config.TopologicalAEConfig attribute) (coco_pipe.dim_reduction.reducers.neighbor.ParametricUMAPReducer attribute) (coco_pipe.dim_reduction.reducers.topology.TopologicalAEReducer attribute)

versions (coco_pipe.report.config.ProvenanceConfig attribute)

W

warm_start (coco_pipe.decoding.configs.ElasticNetConfig attribute) (coco_pipe.decoding.configs.GradientBoostingMixin attribute) (coco_pipe.decoding.configs.HistGradientBoostingClassifierConfig attribute) (coco_pipe.decoding.configs.HistGradientBoostingRegressorConfig attribute) (coco_pipe.decoding.configs.LassoConfig attribute) (coco_pipe.decoding.configs.LogisticRegressionConfig attribute) (coco_pipe.decoding.configs.MLPMixin attribute) (coco_pipe.decoding.configs.TreeMixin attribute) weights (coco_pipe.decoding.configs.KNeighborsClassifierConfig attribute) (coco_pipe.decoding.configs.KNeighborsRegressorConfig attribute) whiten (coco_pipe.decoding.configs.ReducerConfig attribute) (coco_pipe.dim_reduction.config.IncrementalPCAConfig attribute) (coco_pipe.dim_reduction.config.PCAConfig attribute)

whitener_ (coco_pipe.io.transform.SpatialWhitener attribute) width (coco_pipe.report.elements.ImageElement attribute) window_embeddings (coco_pipe.decoding.foundation_models.extraction.FoundationEmbeddingResult attribute) window_index (coco_pipe.decoding.foundation_models.extraction.FoundationEmbeddingResult attribute) window_length (coco_pipe.io.config.BIDSConfig attribute) (coco_pipe.io.dataset.BIDSDataset attribute) window_start (coco_pipe.decoding.foundation_models.extraction.FoundationEmbeddingResult attribute) window_stop (coco_pipe.decoding.foundation_models.extraction.FoundationEmbeddingResult attribute) with_features() (coco_pipe.io.DataContainer method) wrapper (coco_pipe.decoding.configs.TemporalDecoderConfig attribute) write_embedding_dataset_description() (in module coco_pipe.io.embeddings) write_embedding_manifest() (in module coco_pipe.io.embeddings) write_run_status() (in module coco_pipe.decoding.persistence) (in module coco_pipe.dim_reduction.artifacts)

X

X (coco_pipe.dim_reduction.evaluation.result.EmbeddingQualityResult attribute) (coco_pipe.dim_reduction.evaluation.result.VelocityResult attribute) (coco_pipe.io.DataContainer attribute)

Y

y (coco_pipe.io.DataContainer attribute)

Z

Z (coco_pipe.dim_reduction.evaluation.result.EmbeddingQualityResult attribute) (coco_pipe.dim_reduction.evaluation.result.VelocityResult attribute)

zscore() (coco_pipe.io.DataContainer method)