spacec package

Subpackages

• spacec.archive namespace
  • Submodules
  • spacec.archive.tools_archive module
    • tl_Chose_window_size()
    • tl_Create_neighborhoods()
    • tl_analyze_image()
    • tl_apply_mask()
    • tl_cell_types_de()
    • tl_corr_cell_ad()
    • tl_generate_info_dataframe()
    • tl_generate_mask()
    • tl_generate_masks_from_images()
    • tl_generate_voronoi_plots()
    • tl_get_distances()
    • tl_process_data()
    • tl_process_files()
    • tl_spatial_context_stats()
    • tl_test_clustering_resolutions()
    • tl_xycorr()
• spacec.helperfunctions package
  • Module contents
    • check_for_gpu()
    • downscale_tissue()
    • make_anndata()
• spacec.plotting package
  • Module contents
    • BC_projection()
    • catplot()
    • cn_exp_heatmap()
    • cn_map()
    • coordinates_on_image()
    • count_patch_proximity_res()
    • create_pie_charts()
    • distance_graph()
    • dumbbell()
    • plot_top_n_distances()
    • ppa_res_donut()
    • segmentation_ch()
    • show_masks()
    • stacked_bar_plot()
    • tissue_lables()
    • zcount_thres()
• spacec.preprocessing package
  • Module contents
    • compensate_cell_matrix()
    • filter_data()
    • format()
    • read_segdf()
    • remove_noise()
• spacec.tools package
  • Module contents
    • adata_stellar()
    • cell_segmentation()
    • clustering()
    • filter_interactions()
    • identify_interactions()
    • label_tissue()
    • launch_interactive_clustering()
    • ml_predict()
    • ml_train()
    • neighborhood_analysis()
    • patch_proximity_analysis()
    • remove_rare_cell_types()
    • save_labelled_tissue()
    • tm_viewer()
    • tm_viewer_catplot()

Module contents