unravel.cluster_stats package

• unravel.cluster_stats.fdr_range module
  • Usage:
  • parse_args()
  • smart_float_format()
  • fdr_range()
  • main()
• unravel.cluster_stats.fdr module
  • Usage
  • parse_args()
  • fdr()
  • cluster_index()
  • reverse_clusters()
  • split_clusters_based_on_effect()
  • process_fdr_and_clusters()
  • main()
• unravel.cluster_stats.fstat_sig_vx_mask module
  • Usage:
  • parse_args()
  • main()
• unravel.cluster_stats.recursively_mirror_rev_cluster_indices module
  • Usage:
  • parse_args()
  • process_file()
  • main()
• unravel.cluster_stats.validation module
  • Usage:
  • parse_args()
  • crop_outer_space()
  • cluster_bbox()
  • cluster_bbox_parallel()
  • count_cells()
  • load_ccfv3_lookup()
  • metric_in_cluster()
  • metric_in_cluster_parallel()
  • metric_in_subregions_of_cluster()
  • metric_in_subregions_of_cluster_parallel()
  • main()
• unravel.cluster_stats.summary_config module
  • Usage:
  • parse_args()
  • main()
• unravel.cluster_stats.summary module
  • Usage if running directly after cstats_validation:
  • Usage from a cluster correction dir after cstats_validation:
  • Usage if running after cstats_validation and cstats_org_data:
  • parse_args()
  • run_script()
  • main()
• unravel.cluster_stats.brain_model module
  • Usage:
  • parse_args()
  • main()
• unravel.cluster_stats.find_incongruent_clusters module
  • Usage:
  • parse_args()
  • find_incongruent_clusters()
  • main()
• unravel.cluster_stats.group_bilateral_data module
  • Usage:
  • parse_args()
  • group_hemisphere_data()
  • main()
• unravel.cluster_stats.mean_IF module
  • Usage:
  • Usage for region means within clusters:
  • parse_args()
  • build_label_index()
  • calculate_mean_intensity()
  • write_rows_to_csv()
  • condition_sample_from_filename()
  • add_region_metadata()
  • resolve_lut_path()
  • load_region_lut()
  • main()
• unravel.cluster_stats.legend module
  • Usage:
  • parse_args()
  • extract_unique_regions_from_file()
  • apply_rgb_to_cell()
  • main()
• unravel.cluster_stats.org_data module
  • Usage
  • parse_args()
  • resolve_cluster_correction_dir()
  • find_matching_directory()
  • cp()
  • copy_stats_files()
  • organize_validation_data()
  • main()
• unravel.cluster_stats.prism module
  • Usage:
  • parse_args()
  • sort_samples()
  • pool_sample_rows()
  • generate_summary_table()
  • main()
• unravel.cluster_stats.cstats module
  • Usage for t-tests:
  • Usage for Tukey’s tests:
  • parse_args()
  • get_matching_input_csvs()
  • detect_metric_schema()
  • load_metric_csv_for_stats()
  • condition_selector()
  • pool_sample_metric()
  • cluster_validation_data_df()
  • valid_clusters_t_test()
  • perform_tukey_test()
  • main()
• unravel.cluster_stats.stats_table module
  • Usage:
  • parse_args()
  • cluster_summary()
  • main()
• unravel.cluster_stats.sunburst module
  • Usage:
  • parse_args()
  • calculate_regional_volumes()
  • sunburst()
  • main()
• unravel.cluster_stats.sunburst_sort module
  • Sorting by hierarchy and value:
  • Usage:
  • parse_args()
  • sunburst_sort()
  • main()
• unravel.cluster_stats.table module
  • Sorting by hierarchy and volume:
  • Usage:
  • parse_args()
  • can_collapse()
  • collapse_hierarchy()
  • calculate_top_regions()
  • get_top_regions_and_percent_vols()
  • get_fill_color()
  • main()
• unravel.cluster_stats.crop module
  • Usage with all clusters:
  • Usage with a bounding box:
  • Usage with a cluster ID:
  • parse_args()
  • save_cropped_img()
  • main()
• unravel.cluster_stats.index module
  • Usage
  • parse_args()
  • generate_sunburst()
  • main()
• unravel.cluster_stats.mean_IF_summary module
  • Usage for cluster-only t-tests:
  • Usage for cluster-region Dunnett tests:
  • Usage with optional region LUT:
  • parse_args()
  • significance_label()
  • safe_filename()
  • resolve_lut_path()
  • load_region_lut()
  • get_region_info()
  • load_all_data()
  • perform_t_tests()
  • perform_dunnett()
  • safe_col_name()
  • write_dunnett_wide_csv()
  • perform_tukey()
  • add_group_summary_columns()
  • run_stats()
  • prepare_plot_df()
  • add_significance_bars()
  • get_pair_df()
  • summarize_pair()
  • plot_data()
  • main()
• unravel.cluster_stats.clusters module
  • Usage
  • parse_args()
  • main()
• unravel.cluster_stats.reshape module
  • Usage:
  • Usage with combined groups:
  • Usage for mean_IF data:
  • parse_args()
  • detect_simple_metric_schema()
  • simple_metric_data_df()
  • main()
• unravel.cluster_stats.effect_sizes package
  • unravel.cluster_stats.effect_sizes.effect_sizes module
    • Usage
    • parse_args()
    • condition_selector()
    • hedges_g()
    • filter_dataframe()
    • main()
  • unravel.cluster_stats.effect_sizes.effect_sizes_by_sex__absolute module
    • parse_args()
    • condition_selector()
    • filter_dataframe()
    • hedges_g()
    • main()
  • unravel.cluster_stats.effect_sizes.effect_sizes_by_sex__relative module
    • Usage
    • parse_args()
    • condition_selector()
    • filter_dataframe()
    • mean_std_count()
    • relative_hedges_g()
    • main()