Index A | B | C | F | G | M | N | P | Q | R | S | T A aggregate_across_cells() (in module scranpy) aggregate_across_cells_se() (in module scranpy) aggregate_across_genes() (in module scranpy) aggregate_across_genes_se() (in module scranpy) aggregate_column_data() (in module scranpy) analyze() (in module scranpy) analyze_se() (in module scranpy) B build_snn_graph() (in module scranpy) C center_size_factors() (in module scranpy) choose_highly_variable_genes() (in module scranpy) choose_pseudo_count() (in module scranpy) choose_rna_hvgs_se() (in module scranpy) cluster_graph() (in module scranpy) cluster_graph_se() (in module scranpy) cluster_kmeans() (in module scranpy) cluster_kmeans_se() (in module scranpy) combine_factors() (in module scranpy) compute_adt_qc_metrics() (in module scranpy) compute_clrm1_factors() (in module scranpy) compute_crispr_qc_metrics() (in module scranpy) compute_rna_qc_metrics() (in module scranpy) compute_rna_qc_metrics_with_altexps() (in module scranpy) correct_mnn() (in module scranpy) correct_mnn_se() (in module scranpy) F filter_adt_qc_metrics() (in module scranpy) filter_crispr_qc_metrics() (in module scranpy) filter_rna_qc_metrics() (in module scranpy) fit_variance_trend() (in module scranpy) format_compute_adt_qc_metrics_result() (in module scranpy) format_compute_crispr_qc_metrics_result() (in module scranpy) format_compute_rna_qc_metrics_result() (in module scranpy) format_score_markers_result() (in module scranpy) G get_test_adt_data_se() (in module scranpy) get_test_crispr_data_se() (in module scranpy) get_test_rna_data_se() (in module scranpy) M model_gene_variances() (in module scranpy) module scranpy N normalize_adt_counts_se() (in module scranpy) normalize_counts() (in module scranpy) normalize_crispr_counts_se() (in module scranpy) normalize_rna_counts_se() (in module scranpy) P preview_markers() (in module scranpy) Q quick_adt_qc_se() (in module scranpy) quick_crispr_qc_se() (in module scranpy) quick_rna_qc_se() (in module scranpy) R run_all_neighbor_steps() (in module scranpy) run_all_neighbor_steps_se() (in module scranpy) run_pca() (in module scranpy) run_pca_se() (in module scranpy) run_tsne() (in module scranpy) run_tsne_se() (in module scranpy) run_umap() (in module scranpy) run_umap_se() (in module scranpy) S sanitize_size_factors() (in module scranpy) scale_by_neighbors() (in module scranpy) scale_by_neighbors_se() (in module scranpy) score_gene_set() (in module scranpy) score_gene_set_se() (in module scranpy) score_markers() (in module scranpy) score_markers_se() (in module scranpy) scranpy module subsample_by_neighbors() (in module scranpy) suggest_adt_qc_thresholds() (in module scranpy) suggest_crispr_qc_thresholds() (in module scranpy) suggest_rna_qc_thresholds() (in module scranpy) summarize_effects() (in module scranpy) T test_enrichment() (in module scranpy) tsne_perplexity_to_neighbors() (in module scranpy)