Index A | B | C | D | E | F | G | H | I | K | L | M | P | Q | R | S | T | U | V | W A add_gene_metadata() (in module dotools_py.utility) add_smooth_kernel() (in module dotools_py.utility) auto_annot() (in module dotools_py.tl) B barplot() (in module dotools_py.pl) boxplot() (in module dotools_py.pl) C cell_composition() (in module dotools_py.pl) cluster_ttest() (dotools_py.tl.DGEAnalysis method) correlation() (in module dotools_py.pl) create_report() (in module dotools_py.utility) D density() (in module dotools_py.pl) deseq() (dotools_py.tl.DGEAnalysis method) dge_results() (in module dotools_py.get) DGEAnalysis (class in dotools_py.tl) dotools_py.bm module dotools_py.dt module dotools_py.get module dotools_py.io module dotools_py.pl module dotools_py.pp module dotools_py.settings module dotools_py.tl module dotools_py.utility module dotplot() (in module dotools_py.pl) E edger() (dotools_py.tl.DGEAnalysis method) embedding() (in module dotools_py.pl) eval_integration() (in module dotools_py.bm) example_10x() (in module dotools_py.dt) example_10x_processed() (in module dotools_py.dt) example_visium() (in module dotools_py.dt) example_visium_processed() (in module dotools_py.dt) expr() (in module dotools_py.get) extended_tab20() (in module dotools_py.utility) F find_doublets() (in module dotools_py.pp) find_methods() (dotools_py.tl.DGEAnalysis class method) free_memory() (in module dotools_py.utility) full_recluster() (in module dotools_py.tl) G generate_cmap() (in module dotools_py.utility) get_dge (dotools_py.tl.DGEAnalysis attribute) get_hex_colormaps() (in module dotools_py.utility) go_analysis() (in module dotools_py.tl) graph_connectivity() (in module dotools_py.bm) grouped_ttest() (in module dotools_py.tl) H heart_markers() (in module dotools_py.dt) heatmap() (in module dotools_py.pl) heatmap_foldchange() (in module dotools_py.pl) I importer_py() (in module dotools_py.pp) integrate_data() (in module dotools_py.tl) interactive_session() (in module dotools_py.settings) K kbet() (in module dotools_py.bm) L layer_swap() (in module dotools_py.get) layers() (in module dotools_py.pl) lineplot() (in module dotools_py.pl) live_display() (in module dotools_py.utility) log2fc() (in module dotools_py.get) log_normalize() (in module dotools_py.pp) logreg() (dotools_py.tl.DGEAnalysis method) M mast() (dotools_py.tl.DGEAnalysis method) matplotlib_backend() (in module dotools_py.settings) mean_expr() (in module dotools_py.get) module dotools_py.bm dotools_py.dt dotools_py.get dotools_py.io dotools_py.pl dotools_py.pp dotools_py.settings dotools_py.tl dotools_py.utility P pcr_comparison() (in module dotools_py.bm) pcts_cells() (in module dotools_py.get) pearson_residuals_normalize() (in module dotools_py.pp) plot_stats() (dotools_py.pl.StatsPlotter method) pseudobulk() (in module dotools_py.get) pvalues() (dotools_py.pl.TestData class method) pvalues_labels() (dotools_py.pl.TestData class method) Q quality_control() (in module dotools_py.pp) R rank_genes_condition() (in module dotools_py.tl) rank_genes_consensus() (in module dotools_py.tl) rank_genes_groups() (in module dotools_py.tl) rank_genes_pseudobulk() (in module dotools_py.tl) read_10x_h5() (in module dotools_py.io) read_10x_mtx() (in module dotools_py.io) read_csv() (in module dotools_py.io) read_excel() (in module dotools_py.io) read_h5ad() (in module dotools_py.io) read_mtx() (in module dotools_py.io) read_parquet() (in module dotools_py.io) read_rds() (in module dotools_py.io) read_visium() (in module dotools_py.io) read_zarr() (in module dotools_py.io) reclustering() (in module dotools_py.tl) ridgeplot() (in module dotools_py.pl) run_cellbender() (in module dotools_py.pp) run_harmony() (in module dotools_py.tl) run_mast() (in module dotools_py.tl) run_scanvi() (in module dotools_py.tl) run_scvi() (in module dotools_py.tl) run_seurat_integration() (in module dotools_py.tl) run_test() (dotools_py.pl.TestData method) S save_rds() (in module dotools_py.io) select_slide() (in module dotools_py.utility) session_settings() (in module dotools_py.settings) set_kernel_logger() (in module dotools_py.settings) set_random_state() (in module dotools_py.settings) silhouette_batch() (in module dotools_py.bm) slides() (in module dotools_py.pl) spine_format() (in module dotools_py.utility) split_bar_gsea() (in module dotools_py.pl) split_embedding() (in module dotools_py.pl) standard_ct_labels_heart() (in module dotools_py.dt) StatsPlotter (class in dotools_py.pl) subset() (in module dotools_py.get) subset_df() (in module dotools_py.get) T tab30() (in module dotools_py.utility) TestData (class in dotools_py.pl) toogle_kernel_logger() (in module dotools_py.settings) transfer_labels() (in module dotools_py.utility) ttest() (dotools_py.tl.DGEAnalysis method) ttest_overtim_var() (dotools_py.tl.DGEAnalysis method) U umap() (in module dotools_py.pl) V violinplot() (in module dotools_py.pl) volcano_plot() (in module dotools_py.pl) W wilcoxon() (dotools_py.tl.DGEAnalysis method)
