Index _ | A | B | C | D | E | F | G | I | K | L | M | N | P | Q | R | S | T | U | V | W _ __annotations__ (scranpy.adt_quality_control.ComputeAdtQcMetricsResults attribute) (scranpy.adt_quality_control.SuggestAdtQcThresholdsResults attribute) (scranpy.aggregate_across_cells.AggregateAcrossCellsResults attribute) (scranpy.analyze.AnalyzeResults attribute) (scranpy.build_snn_graph.GraphComponents attribute) (scranpy.cluster_graph.ClusterGraphLeidenResults attribute) (scranpy.cluster_graph.ClusterGraphMultilevelResults attribute) (scranpy.cluster_graph.ClusterGraphResults attribute) (scranpy.cluster_graph.ClusterGraphWalktrapResults attribute) (scranpy.cluster_kmeans.ClusterKmeansResults attribute) (scranpy.correct_mnn.CorrectMnnResults attribute) (scranpy.crispr_quality_control.ComputeCrisprQcMetricsResults attribute) (scranpy.crispr_quality_control.SuggestCrisprQcThresholdsResults attribute) (scranpy.model_gene_variances.ModelGeneVariancesResults attribute) (scranpy.rna_quality_control.ComputeRnaQcMetricsResults attribute) (scranpy.rna_quality_control.SuggestRnaQcThresholdsResults attribute) (scranpy.run_all_neighbor_steps.RunAllNeighborStepsResults attribute) (scranpy.run_pca.RunPcaResults attribute) (scranpy.scale_by_neighbors.ScaleByNeighborsResults attribute) (scranpy.score_gene_set.ScoreGeneSetResults attribute) (scranpy.score_markers.ScoreMarkersResults attribute) (scranpy.summarize_effects.GroupwiseSummarizedEffects attribute) __dataclass_fields__ (scranpy.adt_quality_control.ComputeAdtQcMetricsResults attribute) (scranpy.adt_quality_control.SuggestAdtQcThresholdsResults attribute) (scranpy.aggregate_across_cells.AggregateAcrossCellsResults attribute) (scranpy.analyze.AnalyzeResults attribute) (scranpy.build_snn_graph.GraphComponents attribute) (scranpy.cluster_graph.ClusterGraphLeidenResults attribute) (scranpy.cluster_graph.ClusterGraphMultilevelResults attribute) (scranpy.cluster_graph.ClusterGraphResults attribute) (scranpy.cluster_graph.ClusterGraphWalktrapResults attribute) (scranpy.cluster_kmeans.ClusterKmeansResults attribute) (scranpy.correct_mnn.CorrectMnnResults attribute) (scranpy.crispr_quality_control.ComputeCrisprQcMetricsResults attribute) (scranpy.crispr_quality_control.SuggestCrisprQcThresholdsResults attribute) (scranpy.model_gene_variances.ModelGeneVariancesResults attribute) (scranpy.rna_quality_control.ComputeRnaQcMetricsResults attribute) (scranpy.rna_quality_control.SuggestRnaQcThresholdsResults attribute) (scranpy.run_all_neighbor_steps.RunAllNeighborStepsResults attribute) (scranpy.run_pca.RunPcaResults attribute) (scranpy.scale_by_neighbors.ScaleByNeighborsResults attribute) (scranpy.score_gene_set.ScoreGeneSetResults attribute) (scranpy.score_markers.ScoreMarkersResults attribute) (scranpy.summarize_effects.GroupwiseSummarizedEffects attribute) __dataclass_params__ (scranpy.adt_quality_control.ComputeAdtQcMetricsResults attribute) (scranpy.adt_quality_control.SuggestAdtQcThresholdsResults attribute) (scranpy.aggregate_across_cells.AggregateAcrossCellsResults attribute) (scranpy.analyze.AnalyzeResults attribute) (scranpy.build_snn_graph.GraphComponents attribute) (scranpy.cluster_graph.ClusterGraphLeidenResults attribute) (scranpy.cluster_graph.ClusterGraphMultilevelResults attribute) (scranpy.cluster_graph.ClusterGraphResults attribute) (scranpy.cluster_graph.ClusterGraphWalktrapResults attribute) (scranpy.cluster_kmeans.ClusterKmeansResults attribute) (scranpy.correct_mnn.CorrectMnnResults attribute) (scranpy.crispr_quality_control.ComputeCrisprQcMetricsResults attribute) (scranpy.crispr_quality_control.SuggestCrisprQcThresholdsResults attribute) (scranpy.model_gene_variances.ModelGeneVariancesResults attribute) (scranpy.rna_quality_control.ComputeRnaQcMetricsResults attribute) (scranpy.rna_quality_control.SuggestRnaQcThresholdsResults attribute) (scranpy.run_all_neighbor_steps.RunAllNeighborStepsResults attribute) (scranpy.run_pca.RunPcaResults attribute) (scranpy.scale_by_neighbors.ScaleByNeighborsResults attribute) (scranpy.score_gene_set.ScoreGeneSetResults attribute) (scranpy.score_markers.ScoreMarkersResults attribute) (scranpy.summarize_effects.GroupwiseSummarizedEffects attribute) __eq__() (scranpy.adt_quality_control.ComputeAdtQcMetricsResults method) (scranpy.adt_quality_control.SuggestAdtQcThresholdsResults method) (scranpy.aggregate_across_cells.AggregateAcrossCellsResults method) (scranpy.analyze.AnalyzeResults method) (scranpy.build_snn_graph.GraphComponents method) (scranpy.cluster_graph.ClusterGraphLeidenResults method) (scranpy.cluster_graph.ClusterGraphMultilevelResults method) (scranpy.cluster_graph.ClusterGraphResults method) (scranpy.cluster_graph.ClusterGraphWalktrapResults method) (scranpy.cluster_kmeans.ClusterKmeansResults method) (scranpy.correct_mnn.CorrectMnnResults method) (scranpy.crispr_quality_control.ComputeCrisprQcMetricsResults method) (scranpy.crispr_quality_control.SuggestCrisprQcThresholdsResults method) (scranpy.model_gene_variances.ModelGeneVariancesResults method) (scranpy.rna_quality_control.ComputeRnaQcMetricsResults method) (scranpy.rna_quality_control.SuggestRnaQcThresholdsResults method) (scranpy.run_all_neighbor_steps.RunAllNeighborStepsResults method) (scranpy.run_pca.RunPcaResults method) (scranpy.scale_by_neighbors.ScaleByNeighborsResults method) (scranpy.score_gene_set.ScoreGeneSetResults method) (scranpy.score_markers.ScoreMarkersResults method) (scranpy.summarize_effects.GroupwiseSummarizedEffects method) __hash__ (scranpy.adt_quality_control.ComputeAdtQcMetricsResults attribute) (scranpy.adt_quality_control.SuggestAdtQcThresholdsResults attribute) (scranpy.aggregate_across_cells.AggregateAcrossCellsResults attribute) (scranpy.analyze.AnalyzeResults attribute) (scranpy.build_snn_graph.GraphComponents attribute) (scranpy.cluster_graph.ClusterGraphLeidenResults attribute) (scranpy.cluster_graph.ClusterGraphMultilevelResults attribute) (scranpy.cluster_graph.ClusterGraphResults attribute) (scranpy.cluster_graph.ClusterGraphWalktrapResults attribute) (scranpy.cluster_kmeans.ClusterKmeansResults attribute) (scranpy.correct_mnn.CorrectMnnResults attribute) (scranpy.crispr_quality_control.ComputeCrisprQcMetricsResults attribute) (scranpy.crispr_quality_control.SuggestCrisprQcThresholdsResults attribute) (scranpy.model_gene_variances.ModelGeneVariancesResults attribute) (scranpy.rna_quality_control.ComputeRnaQcMetricsResults attribute) (scranpy.rna_quality_control.SuggestRnaQcThresholdsResults attribute) (scranpy.run_all_neighbor_steps.RunAllNeighborStepsResults attribute) (scranpy.run_pca.RunPcaResults attribute) (scranpy.scale_by_neighbors.ScaleByNeighborsResults attribute) (scranpy.score_gene_set.ScoreGeneSetResults attribute) (scranpy.score_markers.ScoreMarkersResults attribute) (scranpy.summarize_effects.GroupwiseSummarizedEffects attribute) __match_args__ (scranpy.adt_quality_control.ComputeAdtQcMetricsResults attribute) (scranpy.adt_quality_control.SuggestAdtQcThresholdsResults attribute) (scranpy.aggregate_across_cells.AggregateAcrossCellsResults attribute) (scranpy.analyze.AnalyzeResults attribute) (scranpy.build_snn_graph.GraphComponents attribute) (scranpy.cluster_graph.ClusterGraphLeidenResults attribute) (scranpy.cluster_graph.ClusterGraphMultilevelResults attribute) (scranpy.cluster_graph.ClusterGraphResults attribute) (scranpy.cluster_graph.ClusterGraphWalktrapResults attribute) (scranpy.cluster_kmeans.ClusterKmeansResults attribute) (scranpy.correct_mnn.CorrectMnnResults attribute) (scranpy.crispr_quality_control.ComputeCrisprQcMetricsResults attribute) (scranpy.crispr_quality_control.SuggestCrisprQcThresholdsResults attribute) (scranpy.model_gene_variances.ModelGeneVariancesResults attribute) (scranpy.rna_quality_control.ComputeRnaQcMetricsResults attribute) (scranpy.rna_quality_control.SuggestRnaQcThresholdsResults attribute) (scranpy.run_all_neighbor_steps.RunAllNeighborStepsResults attribute) (scranpy.run_pca.RunPcaResults attribute) (scranpy.scale_by_neighbors.ScaleByNeighborsResults attribute) (scranpy.score_gene_set.ScoreGeneSetResults attribute) (scranpy.score_markers.ScoreMarkersResults attribute) (scranpy.summarize_effects.GroupwiseSummarizedEffects attribute) __repr__() (scranpy.adt_quality_control.ComputeAdtQcMetricsResults method) (scranpy.adt_quality_control.SuggestAdtQcThresholdsResults method) (scranpy.aggregate_across_cells.AggregateAcrossCellsResults method) (scranpy.analyze.AnalyzeResults method) (scranpy.build_snn_graph.GraphComponents method) (scranpy.cluster_graph.ClusterGraphLeidenResults method) (scranpy.cluster_graph.ClusterGraphMultilevelResults method) (scranpy.cluster_graph.ClusterGraphResults method) (scranpy.cluster_graph.ClusterGraphWalktrapResults method) (scranpy.cluster_kmeans.ClusterKmeansResults method) (scranpy.correct_mnn.CorrectMnnResults method) (scranpy.crispr_quality_control.ComputeCrisprQcMetricsResults method) (scranpy.crispr_quality_control.SuggestCrisprQcThresholdsResults method) (scranpy.model_gene_variances.ModelGeneVariancesResults method) (scranpy.rna_quality_control.ComputeRnaQcMetricsResults method) (scranpy.rna_quality_control.SuggestRnaQcThresholdsResults method) (scranpy.run_all_neighbor_steps.RunAllNeighborStepsResults method) (scranpy.run_pca.RunPcaResults method) (scranpy.scale_by_neighbors.ScaleByNeighborsResults method) (scranpy.score_gene_set.ScoreGeneSetResults method) (scranpy.score_markers.ScoreMarkersResults method) (scranpy.summarize_effects.GroupwiseSummarizedEffects method) A adt_filtered (scranpy.analyze.AnalyzeResults attribute) adt_markers (scranpy.analyze.AnalyzeResults attribute) adt_normalized (scranpy.analyze.AnalyzeResults attribute) adt_pca (scranpy.analyze.AnalyzeResults attribute) adt_qc_filter (scranpy.analyze.AnalyzeResults attribute) adt_qc_metrics (scranpy.analyze.AnalyzeResults attribute) adt_qc_thresholds (scranpy.analyze.AnalyzeResults attribute) adt_row_names (scranpy.analyze.AnalyzeResults attribute) adt_size_factors (scranpy.analyze.AnalyzeResults attribute) aggregate_across_cells() (in module scranpy.aggregate_across_cells) (in module scranpy.lib_scranpy) aggregate_across_genes() (in module scranpy.aggregate_across_genes) (in module scranpy.lib_scranpy) AggregateAcrossCellsResults (class in scranpy.aggregate_across_cells) analyze() (in module scranpy.analyze) AnalyzeResults (class in scranpy.analyze) as_igraph() (scranpy.build_snn_graph.GraphComponents method) auc (scranpy.score_markers.ScoreMarkersResults attribute) B block (scranpy.adt_quality_control.SuggestAdtQcThresholdsResults attribute) (scranpy.analyze.AnalyzeResults attribute) (scranpy.crispr_quality_control.SuggestCrisprQcThresholdsResults attribute) (scranpy.rna_quality_control.SuggestRnaQcThresholdsResults attribute) (scranpy.run_pca.RunPcaResults attribute) build_snn_graph (scranpy.run_all_neighbor_steps.RunAllNeighborStepsResults attribute) build_snn_graph() (in module scranpy.build_snn_graph) (in module scranpy.lib_scranpy) C center (scranpy.run_pca.RunPcaResults attribute) center_size_factors() (in module scranpy.center_size_factors) (in module scranpy.lib_scranpy) centers (scranpy.cluster_kmeans.ClusterKmeansResults attribute) choose_highly_variable_genes() (in module scranpy.choose_highly_variable_genes) (in module scranpy.lib_scranpy) choose_pseudo_count() (in module scranpy.choose_pseudo_count) (in module scranpy.lib_scranpy) cluster_graph (scranpy.run_all_neighbor_steps.RunAllNeighborStepsResults attribute) cluster_graph() (in module scranpy.cluster_graph) cluster_kmeans() (in module scranpy.cluster_kmeans) (in module scranpy.lib_scranpy) cluster_leiden() (in module scranpy.lib_scranpy) cluster_multilevel() (in module scranpy.lib_scranpy) cluster_walktrap() (in module scranpy.lib_scranpy) ClusterGraphLeidenResults (class in scranpy.cluster_graph) ClusterGraphMultilevelResults (class in scranpy.cluster_graph) ClusterGraphResults (class in scranpy.cluster_graph) ClusterGraphWalktrapResults (class in scranpy.cluster_graph) ClusterKmeansResults (class in scranpy.cluster_kmeans) clusters (scranpy.analyze.AnalyzeResults attribute) (scranpy.cluster_kmeans.ClusterKmeansResults attribute) cohens_d (scranpy.score_markers.ScoreMarkersResults attribute) column_names (scranpy.analyze.AnalyzeResults attribute) combinations (scranpy.aggregate_across_cells.AggregateAcrossCellsResults attribute) combine_factors() (in module scranpy.combine_factors) (in module scranpy.lib_scranpy) combined (scranpy.scale_by_neighbors.ScaleByNeighborsResults attribute) combined_pca (scranpy.analyze.AnalyzeResults attribute) combined_qc_filter (scranpy.analyze.AnalyzeResults attribute) components (scranpy.run_pca.RunPcaResults attribute) compute_adt_qc_metrics() (in module scranpy.adt_quality_control) (in module scranpy.lib_scranpy) compute_clrm1_factors() (in module scranpy.compute_clrm1_factors) (in module scranpy.lib_scranpy) compute_crispr_qc_metrics() (in module scranpy.crispr_quality_control) (in module scranpy.lib_scranpy) compute_rna_qc_metrics() (in module scranpy.lib_scranpy) (in module scranpy.rna_quality_control) ComputeAdtQcMetricsResults (class in scranpy.adt_quality_control) ComputeCrisprQcMetricsResults (class in scranpy.crispr_quality_control) ComputeRnaQcMetricsResults (class in scranpy.rna_quality_control) correct_mnn() (in module scranpy.correct_mnn) (in module scranpy.lib_scranpy) corrected (scranpy.correct_mnn.CorrectMnnResults attribute) CorrectMnnResults (class in scranpy.correct_mnn) counts (scranpy.aggregate_across_cells.AggregateAcrossCellsResults attribute) crispr_filtered (scranpy.analyze.AnalyzeResults attribute) crispr_markers (scranpy.analyze.AnalyzeResults attribute) crispr_normalized (scranpy.analyze.AnalyzeResults attribute) crispr_pca (scranpy.analyze.AnalyzeResults attribute) crispr_qc_filter (scranpy.analyze.AnalyzeResults attribute) crispr_qc_metrics (scranpy.analyze.AnalyzeResults attribute) crispr_qc_thresholds (scranpy.analyze.AnalyzeResults attribute) crispr_row_names (scranpy.analyze.AnalyzeResults attribute) crispr_size_factors (scranpy.analyze.AnalyzeResults attribute) D delta_detected (scranpy.score_markers.ScoreMarkersResults attribute) delta_mean (scranpy.score_markers.ScoreMarkersResults attribute) detected (scranpy.adt_quality_control.ComputeAdtQcMetricsResults attribute) (scranpy.adt_quality_control.SuggestAdtQcThresholdsResults attribute) (scranpy.aggregate_across_cells.AggregateAcrossCellsResults attribute) (scranpy.crispr_quality_control.ComputeCrisprQcMetricsResults attribute) (scranpy.rna_quality_control.ComputeRnaQcMetricsResults attribute) (scranpy.rna_quality_control.SuggestRnaQcThresholdsResults attribute) (scranpy.score_markers.ScoreMarkersResults attribute) E edges (scranpy.build_snn_graph.GraphComponents attribute) F filter_adt_qc_metrics() (in module scranpy.adt_quality_control) (in module scranpy.lib_scranpy) filter_crispr_qc_metrics() (in module scranpy.crispr_quality_control) (in module scranpy.lib_scranpy) filter_rna_qc_metrics() (in module scranpy.lib_scranpy) (in module scranpy.rna_quality_control) fit_variance_trend() (in module scranpy.fit_variance_trend) (in module scranpy.lib_scranpy) fitted (scranpy.model_gene_variances.ModelGeneVariancesResults attribute) G graph_clusters (scranpy.analyze.AnalyzeResults attribute) GraphComponents (class in scranpy.build_snn_graph) groups (scranpy.score_markers.ScoreMarkersResults attribute) GroupwiseSummarizedEffects (class in scranpy.summarize_effects) I index (scranpy.aggregate_across_cells.AggregateAcrossCellsResults attribute) iterations (scranpy.cluster_kmeans.ClusterKmeansResults attribute) K kmeans_clusters (scranpy.analyze.AnalyzeResults attribute) L levels (scranpy.cluster_graph.ClusterGraphMultilevelResults attribute) M max (scranpy.summarize_effects.GroupwiseSummarizedEffects attribute) max_index (scranpy.crispr_quality_control.ComputeCrisprQcMetricsResults attribute) max_value (scranpy.crispr_quality_control.ComputeCrisprQcMetricsResults attribute) (scranpy.crispr_quality_control.SuggestCrisprQcThresholdsResults attribute) mean (scranpy.model_gene_variances.ModelGeneVariancesResults attribute) (scranpy.score_markers.ScoreMarkersResults attribute) (scranpy.summarize_effects.GroupwiseSummarizedEffects attribute) median (scranpy.summarize_effects.GroupwiseSummarizedEffects attribute) membership (scranpy.cluster_graph.ClusterGraphResults attribute) merge_order (scranpy.correct_mnn.CorrectMnnResults attribute) merges (scranpy.cluster_graph.ClusterGraphWalktrapResults attribute) min (scranpy.summarize_effects.GroupwiseSummarizedEffects attribute) min_rank (scranpy.summarize_effects.GroupwiseSummarizedEffects attribute) mnn_corrected (scranpy.analyze.AnalyzeResults attribute) model_gene_variances() (in module scranpy.lib_scranpy) (in module scranpy.model_gene_variances) ModelGeneVariancesResults (class in scranpy.model_gene_variances) modularity (scranpy.cluster_graph.ClusterGraphMultilevelResults attribute) (scranpy.cluster_graph.ClusterGraphWalktrapResults attribute) module scranpy scranpy.adt_quality_control scranpy.aggregate_across_cells scranpy.aggregate_across_genes scranpy.analyze scranpy.build_snn_graph scranpy.center_size_factors scranpy.choose_highly_variable_genes scranpy.choose_pseudo_count scranpy.cluster_graph scranpy.cluster_kmeans scranpy.combine_factors scranpy.compute_clrm1_factors scranpy.correct_mnn scranpy.crispr_quality_control scranpy.fit_variance_trend scranpy.lib_scranpy scranpy.model_gene_variances scranpy.normalize_counts scranpy.rna_quality_control scranpy.run_all_neighbor_steps scranpy.run_pca scranpy.run_tsne scranpy.run_umap scranpy.sanitize_size_factors scranpy.scale_by_neighbors scranpy.score_gene_set scranpy.score_markers scranpy.subsample_by_neighbors scranpy.summarize_effects scranpy.test_enrichment N normalize_counts() (in module scranpy.lib_scranpy) (in module scranpy.normalize_counts) num_pairs (scranpy.correct_mnn.CorrectMnnResults attribute) P per_block (scranpy.model_gene_variances.ModelGeneVariancesResults attribute) perplexity_to_neighbors() (in module scranpy.lib_scranpy) Q quality (scranpy.cluster_graph.ClusterGraphLeidenResults attribute) R residual (scranpy.model_gene_variances.ModelGeneVariancesResults attribute) rna_filtered (scranpy.analyze.AnalyzeResults attribute) rna_gene_variances (scranpy.analyze.AnalyzeResults attribute) rna_highly_variable_genes (scranpy.analyze.AnalyzeResults attribute) rna_markers (scranpy.analyze.AnalyzeResults attribute) rna_normalized (scranpy.analyze.AnalyzeResults attribute) rna_pca (scranpy.analyze.AnalyzeResults attribute) rna_qc_filter (scranpy.analyze.AnalyzeResults attribute) rna_qc_metrics (scranpy.analyze.AnalyzeResults attribute) rna_qc_thresholds (scranpy.analyze.AnalyzeResults attribute) rna_row_names (scranpy.analyze.AnalyzeResults attribute) rna_size_factors (scranpy.analyze.AnalyzeResults attribute) rotation (scranpy.run_pca.RunPcaResults attribute) run_all_neighbor_steps() (in module scranpy.run_all_neighbor_steps) run_pca() (in module scranpy.lib_scranpy) (in module scranpy.run_pca) run_tsne (scranpy.run_all_neighbor_steps.RunAllNeighborStepsResults attribute) run_tsne() (in module scranpy.lib_scranpy) (in module scranpy.run_tsne) run_umap (scranpy.run_all_neighbor_steps.RunAllNeighborStepsResults attribute) run_umap() (in module scranpy.lib_scranpy) (in module scranpy.run_umap) RunAllNeighborStepsResults (class in scranpy.run_all_neighbor_steps) RunPcaResults (class in scranpy.run_pca) S sanitize_size_factors() (in module scranpy.lib_scranpy) (in module scranpy.sanitize_size_factors) scale (scranpy.run_pca.RunPcaResults attribute) scale_by_neighbors() (in module scranpy.lib_scranpy) (in module scranpy.scale_by_neighbors) ScaleByNeighborsResults (class in scranpy.scale_by_neighbors) scaling (scranpy.scale_by_neighbors.ScaleByNeighborsResults attribute) score_gene_set() (in module scranpy.lib_scranpy) (in module scranpy.score_gene_set) score_markers() (in module scranpy.score_markers) score_markers_pairwise() (in module scranpy.lib_scranpy) score_markers_summary() (in module scranpy.lib_scranpy) ScoreGeneSetResults (class in scranpy.score_gene_set) ScoreMarkersResults (class in scranpy.score_markers) scores (scranpy.score_gene_set.ScoreGeneSetResults attribute) scranpy module scranpy.adt_quality_control module scranpy.aggregate_across_cells module scranpy.aggregate_across_genes module scranpy.analyze module scranpy.build_snn_graph module scranpy.center_size_factors module scranpy.choose_highly_variable_genes module scranpy.choose_pseudo_count module scranpy.cluster_graph module scranpy.cluster_kmeans module scranpy.combine_factors module scranpy.compute_clrm1_factors module scranpy.correct_mnn module scranpy.crispr_quality_control module scranpy.fit_variance_trend module scranpy.lib_scranpy module scranpy.model_gene_variances module scranpy.normalize_counts module scranpy.rna_quality_control module scranpy.run_all_neighbor_steps module scranpy.run_pca module scranpy.run_tsne module scranpy.run_umap module scranpy.sanitize_size_factors module scranpy.scale_by_neighbors module scranpy.score_gene_set module scranpy.score_markers module scranpy.subsample_by_neighbors module scranpy.summarize_effects module scranpy.test_enrichment module snn_graph (scranpy.analyze.AnalyzeResults attribute) status (scranpy.cluster_graph.ClusterGraphResults attribute) (scranpy.cluster_kmeans.ClusterKmeansResults attribute) subsample_by_neighbors() (in module scranpy.lib_scranpy) (in module scranpy.subsample_by_neighbors) subset_proportion (scranpy.rna_quality_control.ComputeRnaQcMetricsResults attribute) (scranpy.rna_quality_control.SuggestRnaQcThresholdsResults attribute) subset_sum (scranpy.adt_quality_control.ComputeAdtQcMetricsResults attribute) (scranpy.adt_quality_control.SuggestAdtQcThresholdsResults attribute) suggest_adt_qc_thresholds() (in module scranpy.adt_quality_control) (in module scranpy.lib_scranpy) suggest_crispr_qc_thresholds() (in module scranpy.crispr_quality_control) (in module scranpy.lib_scranpy) suggest_rna_qc_thresholds() (in module scranpy.lib_scranpy) (in module scranpy.rna_quality_control) SuggestAdtQcThresholdsResults (class in scranpy.adt_quality_control) SuggestCrisprQcThresholdsResults (class in scranpy.crispr_quality_control) SuggestRnaQcThresholdsResults (class in scranpy.rna_quality_control) sum (scranpy.adt_quality_control.ComputeAdtQcMetricsResults attribute) (scranpy.aggregate_across_cells.AggregateAcrossCellsResults attribute) (scranpy.crispr_quality_control.ComputeCrisprQcMetricsResults attribute) (scranpy.rna_quality_control.ComputeRnaQcMetricsResults attribute) (scranpy.rna_quality_control.SuggestRnaQcThresholdsResults attribute) summarize_effects() (in module scranpy.lib_scranpy) (in module scranpy.summarize_effects) T test_enrichment() (in module scranpy.lib_scranpy) (in module scranpy.test_enrichment) to_biocframe() (scranpy.adt_quality_control.ComputeAdtQcMetricsResults method) (scranpy.crispr_quality_control.ComputeCrisprQcMetricsResults method) (scranpy.model_gene_variances.ModelGeneVariancesResults method) (scranpy.rna_quality_control.ComputeRnaQcMetricsResults method) (scranpy.summarize_effects.GroupwiseSummarizedEffects method) to_biocframes() (scranpy.score_markers.ScoreMarkersResults method) to_singlecellexperiment() (scranpy.analyze.AnalyzeResults method) to_summarizedexperiment() (scranpy.aggregate_across_cells.AggregateAcrossCellsResults method) total_variance (scranpy.run_pca.RunPcaResults attribute) tsne (scranpy.analyze.AnalyzeResults attribute) tsne_perplexity_to_neighbors() (in module scranpy.run_tsne) U umap (scranpy.analyze.AnalyzeResults attribute) V variance (scranpy.model_gene_variances.ModelGeneVariancesResults attribute) variance_explained (scranpy.run_pca.RunPcaResults attribute) vertices (scranpy.build_snn_graph.GraphComponents attribute) W weights (scranpy.build_snn_graph.GraphComponents attribute) (scranpy.score_gene_set.ScoreGeneSetResults attribute)