API for Militeee/rcongas
Copy Number Alterations genotyping from single-cell multiomics
| Global functions | |
|---|---|
| %>% | Man page |
| .onLoad | Source code |
| G_likelihood | Source code |
| NB_likelihood | Source code |
| P_likelihood | Source code |
| assemble_likelihood_tibble | Source code |
| assemble_likelihood_tibble_aux | Source code |
| atac_counts | Man page |
| auto_config_run | Man page Source code |
| auto_normalisation_factor | Man page Source code |
| blank_genome | Source code |
| build_clone_tree | Man page Source code |
| campbell_bcpdx | Man page |
| change_spot | Man page Source code |
| clean_outliers_persegment | Source code |
| compute_outliers_per_segment | Source code |
| create_congas_tibble | Man page Source code |
| create_df_from_range | Man page Source code |
| create_input_for_medicc | Source code |
| create_modality | Source code |
| csidx | Source code |
| deidify | Source code |
| detensorize | Source code |
| divide_genome_in_segments | Man page Source code |
| estimate_segment_factors | Source code |
| estimate_segment_factors_aux | Source code |
| evaluate_likelihood | Source code |
| filter_cells_by_quantile | Man page Source code |
| filter_counts_by_quantile | Man page Source code |
| filter_known_genes | Man page Source code |
| filter_missing_data | Man page Source code |
| filter_outliers | Man page Source code |
| filter_segments | Man page Source code |
| fit_congas | Man page Source code |
| fit_congas_single_run | Source code |
| fit_nbmix | Source code |
| format_best_model | Source code |
| gamma_shape_rate | Source code |
| generate_baf | Source code |
| generate_cluster_ploidy_df | Man page Source code |
| generate_ploidy | Man page Source code |
| generate_ploidy_parent | Man page Source code |
| generate_ploidy_parent_fine | Man page Source code |
| generate_random_tree | Man page Source code |
| get_CNA | Source code |
| get_CNA_real | Source code |
| get_cluster_assignments | Source code |
| get_data | Source code |
| get_fit | Man page Source code |
| get_input | Man page Source code |
| get_mixing_proportions | Source code |
| get_modalities | Source code |
| get_normalisation | Source code |
| get_posterior_CNA | Source code |
| get_segment_factors | Source code |
| get_segmentation | Source code |
| get_z_nk | Source code |
| has_atac | Source code |
| has_rna | Source code |
| hg38_karyo | Man page |
| idify | Source code |
| init | Man page Source code |
| init_dirichlet_cna | Source code |
| input_data_from_rcongas | Source code |
| is_bin_on_path | Source code |
| metadata | Man page |
| modality_colors | Source code |
| multiome_congas_object | Man page |
| normalise_modality | Source code |
| outliers_inspector | Source code Source code |
| patel_gbmtn | Man page |
| plot.rcongasplus | Man page Source code |
| plot_data | Man page Source code |
| plot_data_heatmap | Source code |
| plot_data_histogram | Source code |
| plot_data_histogram_aux | Source code |
| plot_data_lineplot | Source code |
| plot_data_mapping | Source code |
| plot_fit | Man page Source code |
| plot_fit_CNA | Source code |
| plot_fit_density | Source code |
| plot_fit_density_aux | Source code |
| plot_fit_heatmap | Source code |
| plot_fit_posterior_CNA | Source code |
| plot_fit_scores | Source code |
| plot_mixing_proportions | Source code |
| plot_tree_congas | Source code |
| print.rcongasplus | Man page Source code |
| randomize_breaks | Man page Source code |
| rna_counts | Man page |
| run_simulation | Man page Source code |
| sanitize_input | Source code |
| sanitize_obj | Source code |
| sanitize_zeroes | Source code |
| segment_selector | Source code |
| segments_selector_congas | Man page |
| segments_selector_nbmix | Source code |
| smoothie | Source code |
| sort_multiome | Source code |
| stat | Man page Source code |
| stat_data | Source code |
| stat_fit | Source code |
| tensorize | Source code |
| trivial_hap | Source code |
| validate_multiome | Source code |
| which_likelihood | Source code |
| zaho_hemato | Man page |
