EndotypY

• EndotypY package
  • Submodules
  • EndotypY.endotyper module
    • Endotyper
      • Endotyper.annotate_local_neighborhood()
      • Endotyper.define_kl_endotypes()
      • Endotyper.define_local_neighborhood()
      • Endotyper.explore_seed_clusters()
      • Endotyper.extract_disease_module()
      • Endotyper.import_network()
      • Endotyper.import_seeds()
      • Endotyper.plot_endotype_grid()
      • Endotyper.plot_endotypes()
      • Endotyper.plot_endotypes_metagraph()
      • Endotyper.prepare_rwr()
  • EndotypY.expansion module
    • calculate_top_genes()
    • convert_gs_lib_to_dict()
    • get_GSEA_significant_terms()
    • get_gene_and_neighborhood_enrichment_terms()
    • get_module_neighborhood_terms_dict()
    • process_gene()
  • EndotypY.import_export module
    • load_seed_set_from_file()
    • read_network_from_file()
  • EndotypY.kl_clustering module
    • compute_feature_matrix()
    • kl_clustering_endotypes()
  • EndotypY.metagraph_visualization module
    • plot_endotypes_metagraph()
  • EndotypY.prepare_rwr module
    • prep_rwr()
  • EndotypY.rwr module
    • extract_connected_module()
    • make_p0()
    • rwr()
    • rwr_from_individual_genes()
  • EndotypY.seed_clusters module
    • run_seed_clustering()
  • EndotypY.utils module
    • convert_entrez_to_symbols()
    • convert_symbols_to_entrez()
    • download_enrichr_library()
  • EndotypY.visualization module
    • plot_endotype()
    • plot_endotype_grid()
    • plot_multiple_endotypes()
  • Module contents