unravel.allen_institute.abca.scRNA_seq package

• unravel.allen_institute.abca.scRNA_seq.expression module
  • Usage:
  • Usage for humans:
  • Usage for mice:
  • parse_args()
  • load_RNAseq_cell_metadata()
  • load_RNAseq_gene_metadata()
  • extract_gene_expression()
  • get_gene_data_wo_cache_and_chunking()
  • load_annotated_cell_metadata()
  • join_cell_metadata()
  • main()
• unravel.allen_institute.abca.scRNA_seq.filter module
  • Usage:
  • parse_args()
  • filter_by_cell_type()
  • main()
• unravel.allen_institute.abca.scRNA_seq.expression_summary module
  • Usage for mouse:
  • Usage for human:
  • Usage for parallel processing:
  • parse_args()
  • infer_species()
  • infer_genes()
  • format_number()
  • natural_sort_text()
  • load_expression_data()
  • source_paths_dataframe()
  • summarize_level()
  • save_outputs()
  • main()
• unravel.allen_institute.abca.scRNA_seq.expression_plot module
  • Usage (sorting by mean expression by default):
  • Usage for selected cell types and genes (ranked by mean expression and sorted by cell count):
  • Usage for the 50 most abundant cell types sorted by abundance:
  • Usage for parallel processing:
  • parse_args()
  • safe_name()
  • natural_sort_text()
  • color_cell_type_tick_labels()
  • detect_genes()
  • validate_and_select_genes()
  • row_rank()
  • prepare_plot_dataframe()
  • summary_context()
  • default_title()
  • automatic_figure_size()
  • matrix_for_metric()
  • finite_max()
  • save_figure()
  • plot_dotplot()
  • plot_heatmap()
  • main()