scranpy

• scranpy package
  • Module contents
    • aggregate_across_cells()
    • aggregate_across_cells_se()
    • aggregate_across_genes()
    • aggregate_across_genes_se()
    • aggregate_column_data()
    • analyze()
    • analyze_se()
    • build_snn_graph()
    • center_size_factors()
    • choose_highly_variable_genes()
    • choose_pseudo_count()
    • choose_rna_hvgs_se()
    • cluster_graph()
    • cluster_graph_se()
    • cluster_kmeans()
    • cluster_kmeans_se()
    • combine_factors()
    • compute_adt_qc_metrics()
    • compute_clrm1_factors()
    • compute_crispr_qc_metrics()
    • compute_rna_qc_metrics()
    • compute_rna_qc_metrics_with_altexps()
    • correct_mnn()
    • correct_mnn_se()
    • filter_adt_qc_metrics()
    • filter_crispr_qc_metrics()
    • filter_rna_qc_metrics()
    • fit_variance_trend()
    • format_compute_adt_qc_metrics_result()
    • format_compute_crispr_qc_metrics_result()
    • format_compute_rna_qc_metrics_result()
    • format_score_markers_result()
    • get_test_adt_data_se()
    • get_test_crispr_data_se()
    • get_test_rna_data_se()
    • model_gene_variances()
    • normalize_adt_counts_se()
    • normalize_counts()
    • normalize_crispr_counts_se()
    • normalize_rna_counts_se()
    • preview_markers()
    • quick_adt_qc_se()
    • quick_crispr_qc_se()
    • quick_rna_qc_se()
    • run_all_neighbor_steps()
    • run_all_neighbor_steps_se()
    • run_pca()
    • run_pca_se()
    • run_tsne()
    • run_tsne_se()
    • run_umap()
    • run_umap_se()
    • sanitize_size_factors()
    • scale_by_neighbors()
    • scale_by_neighbors_se()
    • score_gene_set()
    • score_gene_set_se()
    • score_markers()
    • score_markers_se()
    • subsample_by_neighbors()
    • suggest_adt_qc_thresholds()
    • suggest_crispr_qc_thresholds()
    • suggest_rna_qc_thresholds()
    • summarize_effects()
    • test_enrichment()
    • tsne_perplexity_to_neighbors()